Online-only Table 2 List of literature sources of metabolic information used for NJC19 construction.

From: Large-scale metabolic interaction network of the mouse and human gut microbiota

Ref. #	First author	Year	Title
1	Fontes	2010	Cellulosomes: highly efficient nanomachines designed to deconstruct plant cell wall complex carbohydrates
2	Lynd	2002	Microbial cellulose utilization: fundamentals and biotechnology
3	Patel	1980	Isolation and Characterization of an Anaerobic, Cellulolytic Microorganism, Acetivibrio cellulolyticus gen. nov., sp. nov.
4	Illeghems	2013	Complete genome sequence and comparative analysis of Acetobacter pasteurianus 386B, a strain well-adapted to the cocoa bean fermentation ecosystem
5	Oren	2002	Halophilic Microorganisms and their Environments (Chapter 4)
6	Lazarev	2011	Complete Genome and Proteome of Acholeplasma laidlawii
7	Kay	2001	Recurrent achromobacter piechaudii bacteremia in a patient with hematological malignancy
8	Kiredjian	1986	Alcaligenes piechaudii, a New Species from Human Clinical Specimens and the Environment
9	Reverdy	1984	Nosocomial colonization and infection by Achromobacter xylosoxidans
10	Rogosa	1969	Acidaminococcus gen. n., Acidaminococcus fermentans sp. n., Anaerobic Gram-negative Diplococci Using Amino Acids as the Sole Energy Source for Growth
11	Chang	2010	Complete genome sequence of Acidaminococcus fermentans type strain (VR4T)
12	Eschenlauer	2002	Ammonia Production by Ruminal Microorganisms and Enumeration, Isolation, and Characterization of Bacteria Capable of Growth on Peptides and Amino Acids from the Sheep Rumen
13	Jumas-Bilak	2007	Acidaminococcus intestini sp. nov., isolated from human clinical samples
14	Clark	1995	Acidimicrobium ferrooxidans gen. nov., sp. nov.: mixed-culture ferrous iron oxidation with Sulfobacillus species
15	Kuseel	1999	Microbial Reduction of Fe(III) in Acidic Sediments: Isolation of Acidiphilium cryptum JF-5 Capable of Coupling the Reduction of Fe(III) to the Oxidation of Glucose
16	Zhou	2007	Isolation of a strain of Acidithiobacillus caldus and its role in bioleaching of chalcopyrite
17	Ko	2013	The role of Acidithiobacillus ferrooxidans and Acidithiobacillus thiooxidans in arsenic bioleaching from soil
18	Willems	1992	Transfer of Several Phytopathogenic Pseudomonas Species to Acidovorax as Acidovorax avenae subsp. avenae subsp. nov., comb. nov., Acidovorax avenae subsp. citrulli, Acidovorax avenae subsp. cattleyae, and Acidovorax konjaci
19	Guettler	1999	Actinobacillus succinogenes sp. nov., a novel succinic-acid producing strain from the bovine rumen
20	Bruhlmann	1994	Pectinolytic Enzymes from Actinomycetes for the Degumming of Ramie Bast Fibers
21	Bruns	2003	Aeromicrobium marinum sp. nov., an abundant pelagic bacterium isolated from the German Wadden Sea
22	Abbott	2002	The Genus Aeromonas: Biochemical Characteristics, Atypical Reactions, and Phenotypic Identification Schemes
23	Siebers	2005	Unusual pathways and enzymes of central carbohydrate metabolism in archaea
24	Stacy	2014	Bacterial fight-and-flight responses enhance virulence in a polymicrobial infection
25	Todar	-	Todars Online Textbook of Bacteriology
26	Dagorn	2013	Effect of GABA, a Bacterial Metabolite, on Pseudomonas fluorescens Surface Properties and Cytotoxicity
27	Derrien	2004	Akkermansia muciniphila gen. nov., sp. nov., a human intestinal mucin-degrading bacteria
28	Derrien	2010	Mucin-bacterial interactions in the human oral cavity and digestive tract
29	Killer	2011	Fermentation of mucin by bifidobacteria from rectal samples of humans and rectal and intestinal samples of animals
30	Tailford	2015	Mucin glycan foraging in the human gut microbiome
31	Ze	2013	Some are more equal than others: the role of "keystone" species in the degradation of recalcitrant substrates
32	Rautio	2003	Reclassification of Bacteroides putredinis (Weinberg et al., 1937) in a New Genus Alistipes gen. nov., as Alistipes putredinis comb. nov., and Description of Alistipes finegoldii sp. nov., from Human Sources
33	Song	2006	Alistipes onderdonkii sp. nov. and Alistipes shahii sp. nov., of human origin
34	Sieber	2012	Genomic insights into syntrophy: The paradigm for anaerobic metabolic cooperation
35	Ezaki	2001	Proposal of the genera Anaerococcus gen. nov., Peptoniphilus gen. nov. and Gallicola gen. nov. for members of the genus Peptostreptococcus
36	Falony	2006	Cross-feeding between bifidobacterium longum BB536 and acetate-convertin, butyrate-producing colon bacteria during growth on oligofructose
37	Flint	2007	Interactions and competition within the microbial community of the human colon: links between diet and health
38	Louis	2009	Diversity, metabolism and microbial ecology of butyrate-producing bacteria from large intestine
39	Macfarlane	2012	Bacteria, colonic fermentation, and gastrointestinal health
40	Pryde	2002	The microbiology of butyrate formation in the human colon
41	Sato	2008	Isolation of lactate-utilizing butyrate-producing bacteria from human feces andin vivo administration ofAnaerostipes caccae strain L2 and galacto-oligosaccharides in a rat model
42	Scott	2013	Prebiotic stimulation of human colonic butyrate-producing bacteria and bifidobacteria, in vitro
43	Belenguer	2006	Two Routes of Metabolic Cross-Feeding between Bifidobacterium adolescentis and Butyrate-Producing Anaerobes from the Human Gut
44	Belenguer	2007	Impact of pH on Lactate Formation and Utilization by Human Fecal Microbial Communities
45	Charrier	2006	A novel class of coa-transferase involved in short-chain fatty acid metabolism in butyrate-producing human colonic bacteria
46	Duncan	2004	Lactate-Utilizing Bacteria, Isolated from Human Feces, That Produce Butyrate as a Major Fermentation Product
47	Lawson	2004	Anaerotruncus colihominis gen. nov., sp. nov., from human faeces
48	Drake	2008	Old acetogens, new light
49	Haba	2000	Isolation of lipase-secreting bacteria by deploying used frying oil as selective substrate
50	Shields	2013	Efficacy of a Marine Bacterial Nuclease against Biofilm Forming Microorganisms Isolated from Chronic Rhinosinusitis
51	Willerding	2011	Lipase Activity among Bacteria Isolated from Amazonian Soils
52	Balestrazzi	2007	Nuclease-producing bacteria in soil cultivated with herbicide resistant transgenic white poplars
53	Bentley	1982	Biosynthesis of Vitamin K (Menaquinone) in Bacteria
54	LeBlanc	2011	B-group vitamin production by lactic acid bacteria - Current knowledge and potential applications
55	Leviton	1952	Microbiological Synthesis of Vitamin B12 by Propionic Acid Bacteria
56	Martens	2002	Microbial production of vitamin B12
57	Rodionov	2003	Comparative genomics of the vitamin B12 metabolism and regulation in prokaryotes
58	Degrassi	1997	Purification and Characterization of an Acetyl Xylan Esterase from Bacillus pumilus
59	Giannella	1971	Vitamin B12 uptake by intestinal microorganisms: mechanism and relevance to syndromies of intestinal bacterial growth
60	Saxena	2003	Purification strategies for microbial lipases
61	Heinken	2013	Systems-level characterization of a host-microbe metabolic symbiosis in the mammalian gut
62	Hermann	2003	Industrial production of amino acids by coryneform bacteria
63	LeBlanc	2013	Bacteria as vitamin suppliers to their host: a gut microbiota perspective
64	Meyers	1996	Lipase production by lactic acid bacteria and activity on butter oil
65	Rodionov	2009	A novel class of modular transporters for vitamins in prokaryotes
66	Shimizu	2008	Vitamins and Related Compounds: Microbial Production, in Biotechnology: Special Processes
67	Takeno	2007	Anaerobic growth and potential for amino acid production by nitrate respiration in Corynebacterium glutamicum
68	Thompson	2012	Metabolism of sugars by genetically diverse species of oral Leptotrichia
69	Berstenhorst	2009	Vitamins and Vitamin-like Compounds: Microbial Production
70	Burke	1982	Bacillus subtilis Extracellular Nuclease Production Associated with the spoOH Sporulation Locus
71	Burkholder	1942	Synthesis of vitamins by intestinal bacteria
72	Koropatkin	2012	How glycan metabolism shapes the human gut microbiota
73	Macfarlane	2005	Colonization of Mucin by Human Intestinal Bacteria and Establishment of Biofilm Communities in a Two-Stage Continuous Culture System
74	McNulty	2011	The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins
75	Sonnenburg	2010	Specificity of Polysaccharide Use in Intestinal Bacteroides Species Determines Diet-Induced Microbiota Alterations
76	Cuskin	2015	Human gut Bacteroidetes can utilize yeast mannan through a selfish mechanism
77	Chassard	2010	The cellulose-degrading microbial community of the human gut varies according to the presence or absence of methanogens
78	Flint	2012	Microbial degradation of complex carbohydrates in the gut
79	Flint	2008	Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis
80	Shah	1989	Proposal To Restrict the Genus Bacteroides (Castellani and Chalmers) to Bacteroides fragilis and Closely Related Species
81	Krieg	2010	Bergey’s Manual of Systematic Bacteriology, Volume 4: The Bacteroidetes, Spirochaetes, Tenericutes (Mollicutes), Acidobacteria, Fibrobacteres, Fusobacteria, Dictyoglomi, Gemmatimonadetes, Lentisphaerae, Verrucomicrobia, Chlamydiae, and Planctomycetes
82	Deguchi	1992	Nutritional Requirements in Multiple Auxotrophic Lactic Acid Bacteria: Genetic Lesions Affecting Amino Acid Biosynthetic Pathways in Lactococcus lactis, Enterococcus faecium, and Pediococcus acidilactici
83	Nishiyama	2009	Bacteroides graminisolvens sp. nov., a xylanolytic anaerobe isolated from a methanogenic reactor treating cattle waste
84	Holdeman	1974	New Genus, Coprococcus, Twelve New Species, and Emended Descriptions of Four Previously Described Species of Bacteria from Human Feces
85	Macy	1979	The Biology of Gastrointestinal Bacteroides
86	Salyers	1977	Fermentation of Mucin and Plant Polysaccharides by Strains of Bacteroides from the Human Colon
87	Dodd	2010	Transcriptomic Analyses of Xylan Degradation by Prevotella bryantii and Insights into Energy Acquisition by Xylanolytic Bacteroidetes
88	Macfarlane	1992	Synthesis and Release of Proteases by Bacteroides fragilis
89	Macfarlane	1991	Formation of glycoprotein degrading enzymes by Bacteroides fragilis
90	Macfarlane	1986	Protein Degradation by Human Intestinal Bacteria
91	McBain	1998	Ecological and physiological studies on large intestinal bacteria in relation to production of hydrolytic and reductive enzymes involved in formation of genotoxic metabolites
92	Ridlon	2005	Bile salt biotransformations by human intestinal bacteria
93	Schink	1987	Pathway of propionate formation from ethanol in Pelobacter propionicus
94	Fukiya	2009	Conversion of cholic acid and chenodeoxycholic acid into their 7-oxo derivatives by Bacteroides intestinalis AM-1 isolated from human feces
95	Hatamoto	2014	Bacteroides luti sp. nov., an anaerobic, cellulolytic and xylanolytic bacterium isolated from methanogenic sludge
96	Martens	2011	Recognition and Degradation of Plant Cell Wall Polysaccharides by Two Human Gut Symbionts
97	Goodman	2009	Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat
98	Smith	1996	Studies on Amine Production in the Human Colon: Enumeration of Amine forming Bacteria and Physiological Effects of Carbohydrate and pH
99	Rakoff-Nahoum	2014	An Ecological Network of Polysaccharide Utilization among Human Intestinal Symbionts
100	Jenkins	1982	Differences in susceptibilities of species of the Bacteroides fragilis group to several beta-lactam antibiotics: indole production as an indicator of resistance.
101	Endo	2012	Comparison of Fructooligosaccharide Utilization by Lactobacillus and Bacteroides Species
102	Cato	1976	Reinstatement of Species Rank for Bacteroides fragilis, B. ovatus, B. distasonis, B. thetaiotaomicron, and B. vulgatus: Designation of Neotype Strains for Bacteroides fragilis (Veillon and Zuber) Castellani and Chalmers and Bacteroides thetaiotaomicron (Distaso) Castellani and Chalmers
103	Macfarlane	2003	Regulation of short-chain fatty acid production
104	Cooke	2006	Newly identified vitamin K-producing bacteria isolated from the neonatal faecal flora
105	Johnson	1986	Bacteroides caccae sp. nov., Bacteroides merdae sp. nov., and Bacteroides stercoris sp. nov. Isolated from Human Feces
106	Mahowald	2009	Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla
107	Musso	2011	Interaction between gut microbiota and host metabolism predisposing to obesity and diabetes
108	Payne	2012	Gut microbial adaptation to dietary consumption of fructose, artificial sweeteners and sugar alcohols
109	Rey	2013	Metabolic niche of a prominent sufate-reducing human gut bacterium
110	Rey	2010	Dissecting the in vivo metabolic potential of two human gut acetogens
111	Samuel	2006	A humanized gnotobiotic mouse model of host-archaeal-bacterial mutualism
112	Samuel	2007	Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut
113	Shoaie	2013	Understanding the interactions between bacteria in the human gut through metabolic modeling
114	Smith	1998	Enumeration of amino acid fermenting bacteria in the human large intestine: effects of pH and starch on peptide metabolsim and dissimilation of amino acids
115	Sonnenburg	2006	A hybrid two-component system protein of a prominent human gut symbiont couples glycan sensing in vivo to carbohydrate metabolism
116	Sonnenburg	2005	Glycan Foraging in Vivo by an Intestine-Adapted Bacterial Symbiont
117	Ze	2012	Ruminococcus bromii is a keystone species for the degradation of resistant starch in the human colon
118	Backhed	2005	Host-bacterial mutualism in the human intestine
119	Blaut	2013	Ecology and physiology of the intestinal tract
120	Chassard	2008	Bacteroides xylanisolvens sp. nov., a xylan-degrading bacterium isolated from human faeces
121	Degnan	2014	Human Gut Microbes Use Multiple Transporters to Distinguish Vitamin B12 Analogs and Compete in the Gut
122	Fischbach	2011	Eating for two: How metabolism establishes interspecies interactions in the gut
123	Gibson	2004	Dietary modulation of the human colonic microbiota: updating the concept of prebiotics
124	Kayahara	1994	Δ22-β-Muricholic acid in monoassociated rats and conventional ratsacid in monoassociated rats and conventional rats
125	Conly	1993	The absorption and bioactivity of bacterially synthesized menaquinones
126	Pokusaeva	2011	Cellodextrin Utilization by Bifidobacterium breve UCC2003
127	Pompei	2007	Folate production by bifidobacteria as a potential probiotic property p-aminobenzoic acid?
128	Ramirez-Farias	2009	Effect of inulin on the human gut microbiota: stimulation of Bifidobacterium adolescentis and Faecalibacterium prausnitzii
129	Rossi	2011	Folate production by probiotic bacteria
130	Rossi	2005	Fermentation of Fructooligosaccharides and Inulin by Bifidobacteria: a Comparative Study of Pure and Fecal Cultures
131	Rossi	2010	Bifidobacteria: Genomics and Molecular Aspects (Chapter 6. Probiotic properties of bifidobacteria)
132	Salyers	1977	Fermentation of Mucins and Plant Polysaccharides by Anaerobic Bacteria from the Human Colon
133	Tanaka	1999	Screening of lactic acid bacteria for bile salt hydrolase activity
134	Vernazza	2005	Carbohydrate preference, acid tolerance and bile tolerance in five strains of Bifidobacterium
135	Aachary	2011	Xylooligosaccharides (XOS) as an Emerging Prebiotic: Microbial Synthesis, Utilization, Structural Characterization, Bioactive Properties, and Applications
136	Barrett	2012	gamma-Aminobutyric acid production by culturable bacteria from the human intestine
137	Crociani	1994	Degradation of complex carbohydrates by Bifidobacterium spp.
138	Hojo	2007	Reduction of vitamin K concentration by salivary Bifidobacterium strains and their possible nutritional competition with Porphyromonas gingivalis
139	Kaplan	2000	Fermentation of Fructooligosaccharides by Lactic Acid Bacteria and Bifidobacteria
140	Wilson	2004	Microbial inhabitants of humans (Table 9.9)
141	Corfield	1992	Mucin degradation in the human colon: production of sialidase, sialate O-acetylesterase, N-acetylneuraminate lyase, arylesterase, and glycosulfatase activities by strains of fecal bacteria
142	Hoskins	1981	Mucin degradation in human colon ecosystems
143	Katayama	2005	Novel bifidobacterial glycosidases acting on sugar chains of mucin glycoproteins
144	Peterson	1945	Relation of bacteria to vitamins and other growth factors
145	Ruas-Madiedo	2008	Mucin degradation by bifidobacterium strains isolated from the human intestinal microbiota
146	Menard	2004	Lactic acid bacteria secrete metabolites retaining anti-inflammatory properties after intestinal transport
147	Pokusaeva	2010	Ribose utilization by the human commensal Bifidobacterium breve UCC2003
148	Scott	2011	Substrate-driven gene expression in Roseburia inulinivorans: Importance of inducible enzymes in the utilization of inulin
149	Degnan	1995	Arabinogalactan utilization in continuous cultures of bifidobacterium longum: Effect of co-culture with bacteroides thetaiotamicrobon
150	Kamra	2005	Rumen microbial ecosystem
151	Sela	2008	The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome
152	Vitali	2010	Impact of a synbiotic food on the gut microbial ecology and metabolic profiles
153	Wang	2008	Effects of the in vitro fermentation of oligofructose and inulin by bacteria growing in the human large intestine
154	Barcenilla	2000	Phylogenetic Relationships of Butyrate-Producing Bacteria from the Human Gut
155	Li	2008	Symbiotic gut microbes modulate human metabolic phenotypes
156	David	2013	Diet rapidly and reproducibly alters the human gut microbiome
157	Devkota	2012	Dietary-fat-induced taurocholic acid promotes pathobiont expansion and colitis in Il10-/- mice
158	Laue	1997	Taurine reduction in anaerobic respiration of Bilophila wadsworthia RZATAU
159	Nava	2012	Abundance and diversity of mucosa-associated hydrogenotrophic microbes in the healthy human
160	Silva	2008	Hydrogen as an energy source for the human pathogen Bilophila wadsworthia
161	Liu	2008	Reclassification of Clostridium coccoides, Ruminococcus hansenii, Ruminococcus hydrogenotrophicus, Ruminococcus luti, Ruminococcus productus and Ruminococcus schinkii as Blautia coccoides gen. nov., comb. nov., Blautia hansenii comb. nov., Blautia hydrogenotrophica comb. nov., Blautia luti comb. nov., Blautia producta comb. nov., Blautia schinkii comb. nov. and description of Blautia wexlerae sp. nov., isolated from human faeces
162	Nakamura	2010	Mechanisms of microbial hydrogen disposal in the human colon and implications for health and disease
163	Bernalier	1996	Ruminococcus hydrogenotrophicus sp. nov., a new H2/CO2-utilizing acetogenic bacterium isolated from human feces
164	Chassard	2006	H2 and acetate transfers during xylan fermentation between a butyrate-producing xylanolytic species and hydrogenotrophic microorganisms from the human gut
165	Jorda	1982	Transfer of Rhizobium japonicum Buchanan 1980 to Bradyrhizobium gen. nov., a Genus of Slow-Growing, Root Nodule Bacteria from Leguminous Plants
166	Douglas	1998	Nutritional Interactions in Insect-Microbial Symbioses: Aphids and Their Symbiotic Bacteria Buchnera
167	Perez-Brocal	2006	A small microbial genome: the end of a long symbiotic relationship?
168	Park	2007	Characterization of an Extracellular Lipase in Burkholderia sp. HY-10 Isolated from a Longicorn Beetle
169	Jaeger	1994	Bacterial lipases
170	Chistoserdova	2009	The expanding world of methylotrophic metabolism
171	Moon	2008	Reclassification of Clostridium proteoclasticum as Butyrivibrio proteoclasticus comb. nov., a butyrate-producing ruminal bacterium
172	Russell	1985	Fermentation of Cellodextrins by Cellulolytic and Noncellulolytic Rumen Bacteria
173	Wallace	1997	Metabolism of nitrogen-contraining compounds
174	Wallace	1985	The Role of Different Species of Bacteria in the Hydrolysis of Protein in the Rumen
175	Wallace	1985	Synergism between different species of proteolytic rumen bacteria
176	Cotta	1986	Proteolytic Activity of the Ruminal Bacterium Butyrivibrio fibrisolvens
177	Dehority	1991	Effects of microbial synergism on fibre digestion in the rumen
178	Duncan	2002	Acetate utilization and butyryl coenzyme A(CoA):acetate-CoA transferase in butyrate-producing bacteria from human large intestine
179	Harfoot	1997	Lipid metabolism in the rumen
180	Martin	1994	Nutrient transport by ruminal bacteria
181	Kelly	2010	The Glycobiome of the Rumen Bacterium Butyrivibrio proteoclasticus B316T Highlights Adaptation to a Polysaccharide-Rich Environment
182	Brunecky	2013	Revealing natures cellulase diversity: the digestion mechanism of caldicellulosirutpor bescii
183	Iino	2008	Calditerrivibrio nitroreducens gen. nov., sp. nov., a thermophilic, nitrate-reducing bacterium isolated from a terrestrial hot spring in Japan
184	Voordeckers	2005	Caminibacter mediatlanticus sp. nov., a thermophilic, chemolithoautotrophic, nitrate-ammonifying bacterium isolated from a deep-sea hydrothermal vent on the Mid-Atlantic Ridge
185	Wexler	1996	Sutterella wadsworthensis gen. nov., sp. nov., Bile-Resistant Microaerophilic CampyZobacter gracilis-Like Clinical Isolates
186	Hanfrey	2011	Alternative spermidine biosynthetic route is critical for growth of Campylobacter jejuni and is the dominant polyamine pathway in human gut microbiota
187	McCutcheon	2007	Parallel genomic evolution and metabolic interdependence in an ancient symbiosis
188	Wu	2006	Metabolic Complementarity and Genomics of the Dual Bacterial Symbiosis of Sharpshooters
189	Kageyama	2000	Catenibacterium mitsuokai gen. nov., sp. nov., a Gram-positive anaerobic bacterium isolated from human faeces
190	Miller	2011	Complete genome sequence of the cellulose-degrading bacterium cellulosilyticum lentocellum
191	Garrity	2005	Bergey’s Manual of Systematic Bacteriology, Volume 2 : The Proteobacteria
192	Mead	1971	The Amino Acid-fermenting Clostridia
193	Milne	2011	Metabolic network reconstruction and genome-scale model of butanol-producing strain clostridium beijerinckii ncimb 8052
194	Salimi	2010	Genome-scale metabolic modeling of a clostridial co-culture for consolidated bioprocessing
195	Lee	2005	Evidence for the presence of an alternative glucose transport system in clostridium beijerinckii ncimb 8052 and the solvent-hyperproducing mutant ba101
196	Chen	1999	Effect of acetate on molecular and physiological aspects of clostridium beijerinckii ncimb 8052 solvent production and strain degeneration
197	McSweeney	1999	Isolation and Characterization of Proteolytic Ruminal Bacteria from Sheep and Goats Fed the Tannin-Containing Shrub Legume Calliandra calothyrsus
198	Elsden	1979	Amino acid utilization patterns in clostridial taxonomy
199	Nakanishi	2003	Effects of high amylose maize starch and Clostridium butyricum on metabolism in colonic microbiota and formation of azoxymethane-induced aberrant crypt foci in the rat colon
200	Seedorf	2008	The genome of Clostridium kluyveri, a strict anaerobe with unique metabolic features
201	Aklujkar	2012	The genome of Pelobacter carbinolicus reveals surprising metabolic capabilities and physiological features
202	Payot	1998	Metabolism of cellobiose by Clostridium cellulolyticum growing in continuous culture: evidence for decreased nadh reoxidation as a factor limiting growth
203	McGarr	2005	Diet, anaerobic bacterial metabolism, and colon cancer
204	Stams	1994	Metabolic interactions between anaerobic bacteria in methanogenic environments
205	Stams	2003	Metabolic interactions between methanogenic consortia and anaerobic respiring bacteria
206	Holmstrom	2004	Subdoligranulum variabile gen. nov., sp. nov. from human feces
207	Eudes	2008	Identification of genes encoding the folate and thiamine binding membrane proteins in firmicutes
208	Macfarlane	1988	Contribution of the microflora to proteolysis in the human large intestine
209	Smith	1997	Dissimilatory amino acid metabolism in human colonic bacteria
210	Starr	2006	Role of hyaluronidase in subcutaneous spread and growth of group A streptococcus
211	Vince	1980	Ammonia production by intestinal bacteria: The effect of lactose, lactulose and glucose
212	Zukaite	2000	Acceleration of hyaluronidase production in the course of batch cultivation of Clostridium perfringens can be achieved with bacteriolytic enzymes
213	van B. Robertson	1940	Mucinase: A bacterial enzyme which hydrolyzes synovial fluid mucin and other mucins
214	Attwood	1998	Ammonia-Hyperproducing Bacteria from New Zealand Ruminants
215	Johnson	2009	Interspecies Signaling between Veillonella atypica and Streptococcus gordonii Requires the Transcription Factor CcpA
216	Taras	2002	Reclassification of Eubacterium formicigenerans Holdeman and Moore 1974 as Dorea formicigenerans gen. nov., comb. nov., and description of Dorea longicatena sp. nov., isolated from human faeces
217	Kageyama	2000	Emendation of genus Collinsella and proposal of Collinsella stercoris sp. nov. and Collinsella intestinalis sp. nov.
218	Newsholme	1994	Quantitative aspects of glucose and glutamine metabolism by intestinal cells
219	Roediger	1997	Human colonocyte detoxification
220	Thiele	2013	A community-driven global reconstruction of human metabolism
221	Turnberg	1970	Electrolyte absorption from the colon
222	Yu	2010	Bestrophin-2 mediates bicarbonate transport by goblet cells in mouse colon
223	Bergen	2009	Intestinal Nitrogen Recycling and Utilization in Health and Disease
224	Chen	2010	Microbial and Bioconversion Production of D-xylitol and Its Detection and Application
225	Conly	1994	The contribution of vitamin K2(menaquinones) produced by the intestinal microflora to human nutritional requirements for vitamin K
226	Ganong	1991	Review of medical physiology. Section V. 25. Digestion & absorption
227	Hughes	2011	Protein Degradation in the Large Intestine: Relevance to Colorectal Cancer
228	Suen	2011	The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist
229	Russell	1981	Degradation of Protein by Mixed Cultures of Rumen Bacteria: Identification of Streptococcus Bovis as an Actively Proteolytic rumen bacterium
230	Holland	2006	Development of a defined medium supporting rapid growth for Deinococcus radiodurans and analysis of metabolic capacities
231	Myhr	2000	Denitrovibrio acetiphilus, a novel genus and species of dissimilatory nitrate-reducing bacterium isolated from an oil reservoir model column
232	Schmidt	1995	Interspecies Electron Transfer during Propionate and Butyrate Degradation in Mesophilic, Granular Sludge
233	Imachi	2002	Pelotomaculum thermopropionicum gen. nov., sp. nov., an anaerobic, thermophilic, syntrophic propionate-oxidizing bacterium
234	Cord-Ruwisch	1998	Growth of Geobacter sulfurreducens with Acetate in Syntrophic Cooperation with Hydrogen-Oxidizing Anaerobic Partners
235	Klitgord	2010	Environments that induce synthetic microbial ecosystems
236	Stolyar	2007	Metabolic modeling of a mutualistic microbial community
237	Kosaka	2008	The genome of Pelotomaculum thermopropionicum reveals niche-associated evolution in anaerobic microbiota
238	Lovley	1993	Geobacter metallireducens gen. nov. sp. nov., a microorganism capable of coupling the complete oxidation of organic compounds to the reduction of iron and other metals
239	Downes	2003	Dialister invisus sp. nov., isolated from the human oral cavity
240	Pircher	2007	Formation of cadaverine, histamine, putrescine and tyramine by bacteria isolated from meat, fermented sausages and cheeses
241	Schleifer	1984	Transfer of Streptococcus faecalis and Streptococcus faecium to the Genus Enterococcus norn. rev. as Enterococcus faecalis comb. nov. and Enterococcus faecium comb. nov.
242	Vos	2009	Bergey’s Manual of Systematic Bacteriology, Volume 3: The Firmicutes
243	Deibel	1964	Pyruvate fermentation by Streptococcus faecalis
244	Delk	1975	Biosynthesis of Ribosylthymine in the TransferRNA of Streptococcus faecalis: A Folate-Dependent Methylation Not Involving S-Adenosylmethionine
245	Bos	2013	Volatile Metabolites of Pathogens: A Systematic Review
246	Mulligan	1977	Transport and metabolism of vitamin B6 in lactic acid bacteria
247	Ryu	2001	Characteristics and Glycerol Metabolism of Fumarate-Reducing Enterococcus faecalis RKY1
248	Wang	2009	Bio-hydrogen production from cellulose by sequential co-culture of cellulosic hydrogen bacteria of Enterococcus gallinarum G1 and Ethanoigenens harbinense B49
249	Ryan	2004	Sherris Medical Microbiology (4th ed.)
250	Tang	2005	Xanthomonas campestris pv. campestris possesses a single gluconeogenic pathway that is required for virulence
251	Sawers	2005	Formate and its role in hydrogen production in Escherichia coli
252	Clark	1989	The fermentation pathways of Escherichia coli.
253	Peekhaus	1998	What’s for Dinner?: Entner-Doudoroff Metabolism in Escherichia coli
254	Jones	2011	Anaerobic Respiration of Escherichia coli in the Mouse Intestine
255	Van der Werf	1997	Environmental and physiological factors affecting the succinate product ratio during carbohydrate fermentation by Actinobacillus sp. 130Z
256	Sirko	1995	Sulfate and Thiosulfate Transport in Escherichia coli K-12: Evidence for a Functional Overlapping of Sulfate-and Thiosulfate-Binding Proteins
257	Walker	2011	Dominant and diet-responsive groups of bacteria within the human colonic microbiota
258	Duncan	2002	Roseburia intestinalis sp. nov., a novel saccharolytic, butyrate-producing bacterium from human faeces
259	Duncan	2003	Effects of Alternative Dietary Substrates on Competition between Human Colonic Bacteria in an Anaerobic Fermentor System
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296	Henderson	1979	Mechanism of Folate Transport in Lactobacillus casei: Evidence for a Component Shared with the Thiamine and Biotin Transport Systems
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406	Wu	1994	Anaerobic degradation of normal- and branched-chain fatty acids with four or more carbons to methane by a syntrophic methanogenic triculture
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415	Balch	1997	Acetobacterium, a New Genus of Hydrogen-Oxidizing, Carbon Dioxide-Reducing,Anaerobic Bacteria
416	Buschhorn	1989	Production and Utilization of Ethanol by the Homoacetogen Acetobacterium woodii
417	Peters	1998	Efficiency of hydrogen utilization during unitrophic and mixotrophic growth of Acetobacterium woodii on hydrogen and lactate in the chemostat
418	Heise	1989	Sodium Dependence of Acetate Formation by the Acetogenic Bacterium Acetobacterium woodii
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425	Whitehead	2005	Bacteroides coprosuis sp. nov., isolated from swine-manure storage pits
426	Fenner	2005	Bacteroides massiliensis sp. nov., isolated from blood culture of a newborn
427	Song	2004	“Bacteroides nordii” sp. nov. and “Bacteroides salyersae” sp. nov. Isolated from Clinical Specimens of Human Intestinal Origin
428	Love	1986	Bacteroides tectum sp. nov. and Characteristics of Other Nonpigmented Bactevoides Isolates from Soft-Tissue Infections from Cats and Dogs
429	Benno	1983	Bacteroides pyogenes sp. nov., Bacteroides suis sp. nov., and Bacteroides helcogenes sp. nov., New Species from Abscesses and Feces of Pigs
430	Ezaki	1994	16s Ribosomal DNA Sequences of Anaerobic Cocci and Proposal of Ruminococcus hansenii comb. nov. and Ruminococcus productus comb. nov.
431	Kinyon	1979	Treponema innocens, a New Species of Intestinal Bacteria, and Emended Description of the Type Strain of Treponema hyodysenteriae Harris et al.
432	Stanton	1997	Recognition of Two New Species of Intestinal Spirochetes: Serpulina intermedia sp. nov. and Serpulina murdochii sp. nov.
433	Fardeau	2000	Thermoanaerobacter subterraneus sp. nov., a novel thermophile isolated from oilfield water
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435	Itoh	2003	Caldisphaera lagunensis gen. nov., sp. nov., a novel thermoacidophilic crenarchaeote isolated from a hot spring at Mt Maquiling, Philippines
436	Miroshnichenko	2003	Caldithrix abyssi gen. nov., sp. nov., a nitrate- reducing, thermophilic, anaerobic bacterium isolated from a Mid-Atlantic Ridge hydrothermal vent, represents a novel bacterial lineage
437	Ogg	2011	Caloramator mitchellensis sp. nov., a thermoanaerobe isolated from the geothermal waters of the Great Artesian Basin of Australia, and emended description of the genus Caloramator
438	Ogg	2009	Caloramator australicus sp. nov., a thermophilic, anaerobic bacterium from the Great Artesian Basin of Australia
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442	Sullivan	1995	Candida dubliniensis sp. nov.: phenotypic and molecular characterization of a novel species associated with oral candidosis in HIV-infected individuals
443	Wong	1993	D-Arabitol Metabolism in Candida albicans: Studies of the Biosynthetic Pathway and the Gene That Encodes NAD-Dependent D-Arabitol Dehydrogenase
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445	Rehman	2010	Cadmium biosorption by yeats, Candida tropical is CBL-1, isolated from industrial wastewater
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455	Jung	2010	Clostridium arbusti sp. nov., an anaerobic bacterium isolated from pear orchard soil
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463	Smith	1962	Clostridium innocuum, sp. n., a spore-forming anaerobe isolated from human infections
464	Dabrock	1992	Parameters Affecting Solvent Production by Clostridium pasteurianum
465	Keis	2001	Emended descriptions of Clostridium acetobutylicum and Clostridium beijerinckii, and descriptions of Clostridium saccharoperbutylacetonicum sp. nov. and Clostridium saccharobutylicum sp. nov.
466	Partansky	1935	Anaerobic Bacteria Capable of the Fermentation of Sulfite Waste Liquor
467	Madden	1983	Isolation and Characterization of Clostridium stercorarium sp. nov., Cellulolytic Thermophile
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469	Hethener	1992	Clostridium termitidis sp. nov., a Cellulolytic Bacterium from the Gut of the Wood-feeding Termite, Nasutitermes lujae
470	Jonsson	1990	Enumeration and Confirmation of Clostridium tyrobutyricum in Silages Using Neutral Red, D-Cycloserine, and Lactate Dehydrogenase Activity
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475	L’Haridon	1998	Desulfurobacterium thermolithotrophum gen. nov., sp. nov., a novel autotrophic, sulphur-reducing bacterium isolated from a deep-sea hydrothermal vent
476	Hofstad	2000	Dysgonomonas gen. nov. to accommodate Dysgonomonas gadei sp. nov., an organism isolated from a human gall bladder, and Dysgonomonas capnocytophagoides (formerly CDC group DF-3)
477	Lawson	2002	Dysgonomonas mossii sp. nov., from Human Sources*
478	Doran	1978	Eimeria tenella: vitamin requirements for development in primary cultures of chicken kidney cells.
479	Smith	1986	Monosaccharide Transport by Eimeria tenella Sporozoites
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483	Saha	2006	Emticicia oligotrophica gen. nov., sp. nov., a new member of the family ‘Flexibacteraceae’, phylum Bacteroidetes
484	Mda	2006	Enterococcus caccae sp. nov., isolated from human stools
485	Svec	2001	Enterococcus haemoperoxidus sp. nov. and Enterococcus moraviensis sp. nov., isolated from water
486	Law-Brown	2003	Enterococcus phoeniculicola sp. nov., a novel member of the enterococci isolated from the uropygial gland of the Red-billed Woodhoopoe, Phoeniculus purpureus
487	Vancanneyt	2001	Enterococcus villorum sp. nov., an enteroadherent bacterium associated with diarrhoea in piglets
488	Holdeman	1971	Clostridium ramosum (Vuillemin)comb.nov.:Emended Description and Proposed-NeotypeStrain
489	Holdeman	1980	Descriptions of Eubacterium timidum sp. nov., Eubacterium brachy sp. nov., and Eubacterium nodatum sp. nov. Isolated from Human Periodontitis
490	Margaret	1986	Eubacterium yurii subsp. yurii sp. nov. and Eubacterium yurii subsp. margaretiae subsp. nov.: Test Tube.Brush Bacteria from Subgingival Dental Plaque
491	Cato	1985	Fusobacterium alocis sp. nov. and Fusobacterium sulci sp. nov. from the Human Gingival Sulcus
492	Siqueira	2003	Detection of Filifactor alocis in endodontic infections associated with different forms of periradicular diseases
493	Wakabayashi	1989	Flavobacterium branchiophila sp. nov. a Causative Agent of Bacterial Gill Disease of Freshwater Fishes
494	Bernardet	1986	Cutting a Gordian Knot: Emended Classification and Description of the Genus Flavobacterium, Emended Description of the Family Flavobacteriaceae, and Proposal of Flavobacterium hydatis norn. nov. (Basonym, Cytophaga aquatilis Strohl and Tait 1978)
495	Lewin	1969	A Classification of Flexibacteria
496	Hosoya	2007	Reclassification of Flexibacter aggregans (Lewin 1969) Leadbetter 1974 as a later heterotypic synonym of Flexithrix dorotheae Lewin 1970
497	Shinjo	1981	Proposal of Two Subspecies of Fusobacterium necrophorum (Flugge) Moore and Holdeman: Fusobacterium necrophorum subsp. necrophorum subsp. nov., nom. rev. (ex Flugge 1886), and Fusobacterium necrophorum subsp. funduliforme subsp. nov., nom. rev. (ex Hall6 1898)
498	Collins	1998	Gemella bergeriae sp. nov., Isolated from Human Clinical Specimens
499	Kilpper-Balz	1988	Transfer of Streptococcus morbillorum to the Genus Gemella as Gemella morbillorum comb. nov.
500	Collins	1998	Description of Gemella sanguinis sp. nov., Isolated from Human Clinical Specimens
501	Oren	1984	Halobacteroides halobius gen. nov., sp. nov., a Moderately Halophilic Anaerobic Bacterium from the Bottom Sediments ofthe Dead Sea
502	Peel	1997	Helcococcus kunzii as Sole Isolate from an Infected Sebaceous Cyst
503	Harper	2002	Helicobacter cetorum sp. nov., a Urease-Positive Helicobacter Species Isolated from Dolphins and Whales
504	Fox	2007	Isolation and Characterization of a Novel Helicobacter Species, “Helicobacter macacae,” from Rhesus Monkeys with and without Chronic Idiopathic Colitis”
505	Flores	2012	Hippea jasoniae sp. nov. and Hippea alviniae sp. nov., thermoacidophilic members of the class Deltaproteobacteria isolated from deep-sea hydrothermal vent deposits
506	Eggerth	1935	The Gram-positive Non-spore-bearing Anaerobic Bacilli of Human Feces
507	Iino	2010	Ignavibacterium album gen. nov., sp. nov., a moderately thermophilic anaerobic bacterium isolated from microbial mats at a terrestrial hot spring and proposal of Ignavibacteria classis nov., for a novel lineage at the periphery of green sulfur bacteria
508	Moore	1994	Oribaculum catoniae gen. nov., sp. nov.; Catonella morbi gen. nov., sp. nov.; Hallella seregens gen. nov., sp. nov.; Johnsonella ignava gen. nov., sp. nov.; and Dialister pneumosintes gen. nov., comb. nov., nom. rev., Anaerobic Gram-Negative Bacilli from the Human Gingival Crevice
509	Whitford	2001	Lachnobacterium bovis gen. nov., sp. nov., a novel bacterium isolated from the rumen and faeces of cattle
510	Morita	2010	Lactobacillus equicursoris sp. nov., isolated from the faeces of a thoroughbred racehorse
511	Endo	2010	Lactobacillus florum sp. nov., a fructophilic species isolated from flowers
512	Cousin	2012	Lactobacillus gigeriorum sp. nov., isolated from chicken crop
513	Cousin	2013	Lactobacillus pasteurii sp. nov. and Lactobacillus hominis sp. nov.
514	Chen	201	Lactobacillus pobuzihii sp. nov., isolated from pobuzihi (fermented cummingcordia)
515	Zou	2013	Lactobacillus shenzhenensis sp. nov., isolated from a fermented dairy beverage
516	Rodas	2006	Lactobacillus vini sp. nov., a wine lactic acid bacterium homofermentative for pentoses
517	Hellemond	1997	Leishmania infantum promastigotes have a poor capacity for anaerobic functioning and depend mainly on respiration for their energy generation
518	Vieira	1995	Amino acid uptake and intracellular accumulation in Leishmannia major promastigotes are largely determined by an H+-pump generated membrane potential
519	Ellenberger	1987	Biochemistry and Regulation of Folate and Methotrexate transport in Leishmania major
520	Naderer	2010	Evidence that Intracellular stages of Leishmania major utilize amino sugars as a major carbon source
521	Darling	1989	Carbon dioxide abolishes the reverse Pasteur effect in Leishmania major promastigotes
522	Chevrot	2008	Megamonas rupellensis sp. nov., an anaerobe isolated from the caecum of a duck
523	Podosokorskaya	2013	Characterization of Melioribacter roseus gen. nov., sp. nov., a novel facultatively anaerobic thermophilic cellulolytic bacterium from the class Ignavibacteria, and a proposal of a novel bacterial phylum Ignavibacteriae
524	Bellack	2011	Methanocaldococcus villosus sp. nov., a heavily flagellated archaeon that adheres to surfaces and forms cell–cell contacts
525	Takai	2004	Methanotorris formicicus sp. nov., a novel extremely thermophilic, methane-producing archaeon isolated from a black smoker chimney in the Central Indian Ridge
526	Burrgraf	1990	Methanococcus igneus sp. nov., a Novel Hyperthermophilic Methanogen from a Shallow Submarine Hydrothermal System
527	Leach	1973	Further Studies on Classification of Bovine Strains of Mycoplasmatales, with Proposals for New Species, Acholeplasma modicum and Mycoplasma alkalescens
528	Tully	1972	Synonymy of Mycoplasma arginini and Mycoplasma leonis
529	DaMassa	1994	Mycoplasma auris sp. nov., Mycoplasma cottewii sp. nov., and Mycoplasma yeatsii sp. nov., New Sterol-Requiring Mollicutes from the External Ear Canals of Goats
530	Jordan	1981	Isolation and Characterization of Mycoplasma columbium and Mycoplasma columborale, Two New Species from Pigeons
531	Rosendal	1973	Mycoplasma cynos, a New Canine Mycoplasma Species
532	Jordan	1982	Characterization and Taxonomic Description of Five Mycoplasma Serovars (Serotypes) of Avian Origin and Their Elevation to Species Rank and Further Evaluation of the Taxonomic Status of Mycoplasrna synoviae
533	Madden	1974	Mycoplasma moatsii, a New Species Isolated from Recently Imported Grivit Monkeys (Cercopithecus aethiops)
534	Tully	1974	Characterization of Some Caprine Mycoplasmas, with Proposals for New Species, Mycoplasma capricolum and M ycoplasma putvefaciens
535	Paek	2015	Myroides injenensis sp. nov., a new member isolated from human urine
536	Vancanneyt	1996	Reclassification of Flavobacterium odoraturn (Stutzer 1929) Strains to a New Genus, Myroides, as Myroides odoratus comb. nov. and Myroides odoratimimus sp. nov.
537	Kurtzman	2011	The Yeasts: A Taxonomic Study
538	Brew	1990	The rapid nitrosation of 2,3‐diaminonaphthalene by gastric isolates of Neisseria subflava
539	Nagai	2010	Alistipes indistinctus sp. nov. and Odoribacter laneus sp. nov., common members of the human intestinal microbiota isolated from faeces
540	Iino	2007	Oscillibacter valericigenes gen. nov., sp. nov., a valerate-producing anaerobic bacterium isolated from the alimentary canal of a Japanese corbicula clam
541	Takayuki	1983	Transfer of Peptococcus indolicus, Peptococcus asaccharolyticus, Peptococcus prevotii, and Peptococcus magnus to the Genus Peptostreptococcus and Proposal of Peptostreptococcus tetradius sp. nov.
542	Jung	2014	Peptoniphilus rhinitidis sp. nov., isolated from specimens of chronic rhinosinusitis
543	Downie	2006	Transport of nucleosides across the Plasmodium falciparum parasite plasma membrane has characteristics of PfENT1
544	Sherman	1979	Biochemistry of Plasmodium (Malarial Parasites)
545	Vander-Jagt	1990	D-Lactate production in erythrocytes infected with Plasmodium falciparum
546	Lwoff	1951	Biochemistry and Physiology of Protozoa
547	Lewis-Hughes	1984	In Vitro culture of plasmodium yoelii blood stages
548	Gosink	1998	Polaribacter gen. nov., with three new species, P. irgensii sp. nov., P. franzmannii sp. nov. and P. filamentus sp. nov., gas vacuolate polar marine bacteria of the C’ophaga- Flavobacterium-Bacteroides group and reclassificationof ‘Flectobacillusglomeratus as Polaribacter glomeratus comb. nov.
549	Chen	2005	Proteiniphilum acetatigenes gen. nov., sp. nov., from a UASB reactor treating brewery wastewater
550	Dobson	1993	Direct Sequencing of the Polymerase Chain Reaction- Amplified 16s rRNA Gene of Flavobacten’um gondwanense sp. nov. and Flavobacten’um salegens sp. nov., Two New Species from a Hypersaline Antarctic Lake
551	Duncan	2006	Proposal of Roseburia faecis sp. nov., Roseburia hominis sp. nov. and Roseburia inulinivorans sp. nov., based on isolates from human faeces
552	Chandel	2011	Bioconversion of pentose sugars into ethanol: A review and future directions
553	Senac	1990	Intermediary Metabolite Concentrations in Xylulose- and Glucose- Fermenting Saccharomyces cerevisiae Cells
554	Kradolfer	1982	Tryptophan degradation in Saccharomyces cerevisiae: Characterization of two aromatic aminotransferases
555	Brayant	1956	The characteristics of strains of Selenomonas isolated from bovine rumen contents
556	Whitcomb	1997	Spiroplasma chrysopicola sp. nov., Spiroplasma gladiatoris sp. nov., Spiroplasma helicoides sp. nov., and Spiroplasma tabanidicola sp. nov., from Tabanid (Diptera: Tabanidae) Flies
557	Williamson	1996	Spiroplasma diminutum sp. nov., from Culex annulus Mosquitoes Collected in Taiwan
558	Clark	1985	Spiroplasrna melliferum, a New Species from the Honeybee (Apis mellifera)
559	Whitcomb	1996	Spiroplasma syrphidicola sp. nov., from a Syrphid Fly (Diptera: Syrphidae)
560	Abalain-Colloc	1988	Spiroplasma taiwanense sp. nov. from Culex tritaeniorhynchus Mosquitoes Collected in Taiwan
561	Chesneau	1993	Staphylococcus pasteuri sp. nov., Isolated from Human, Animal, and Food Specimens
562	Whiley	1991	Emended Descriptions and Recognition of Streptococcus constellatus, Streptococcus intermedius, and Streptococcus anginosus as Distinct Species
563	Poyart	2002	Taxonomic dissection of the Streptococcus bovis group by analysis of manganese- dependent superoxide dismutase gene (sodA) sequences: reclassification of ‘Streptococcus infantarius subsp. coli’ as Streptococcus lutetiensis sp. nov. and of Streptococcus bovis biotype II.2 as Streptococcus pasteurianus sp. nov.
564	Schlegel	2003	Reappraisal of the taxonomy of the Streptococcus bovis/Streptococcus equinus complex and related species: description of Streptococcus gallolyticus subsp. gallolyticus subsp. nov., S. gallolyticus subsp. macedonicus subsp. nov. and S. gallolyticus subsp. pasteurianus subsp. nov.
565	Zbinden	2012	Streptococcus tigurinus sp. nov., isolated from blood of patients with endocarditis, meningitis and spondylodiscitis
566	Janssen	1999	Succinispira mobilis gen. nov., sp. nov., a succinate-decarboxylatinganaerobic bacterium
567	Chamkha	2001	Isolation of a cinnamic acid-metabolizing Clostridium glycolicum strain from oil mill wastewaters and emendation of the species description
568	Chen	2013	Tetrapisispora taiwanensis sp. nov. and Tetrapisispora pingtungensis sp. nov., two ascosporogenous yeast species isolated from soil
569	Ueda-Nishimura	1999	A new yeast genus, Tetrapisisporagen. nov.: Tetrapisisporairiornotensis sp. nov., Tetrapisisporananseiensis sp. nov. and Tetrapisisporaarboricolasp. nov., frornthe Nansei Islands, and reclassification of Kluyveromyces phaffii (van der Walt) van der Walt as Tetrapisispora phaffii comb. nov.
570	Van der Walt	1963	Fabospora phaffii sp.n.
571	Lee	1993	Taxonomic Distinction of Saccharolytic Thermophilic Anaerobes: Description of Thermoanaerobacteriumxylanolyticumgen. nov.,sp. nov., and Thermoanaerobacterium saccharolyticum gen. nov., sp~. nov.;Reclassificationof Thermoanaerobiumbrockii,Clostridium thermosulfurogenes, and Clostridium thermohydrosulfiricum ElO0-69 as Thermoanaerobacter brockii comb. nov., Thermoanaerobacteriumthermosulfurigenescomb. nov.,and Thermoanaerobacter thermohydrosulfuricus comb. nov., Respectively; and Transfer of Clostridium thermohydrosulfuricum 39E to Thermoanaerobacter ethanolicus
572	Moussard	2004	Thermodesulfatator indicus gen. nov., sp. nov., a novel thermophilic chemolithoautotrophic sulfate-reducing bacterium isolated from the Central Indian Ridge
573	Hamilton-Brehm	2013	Thermodesulfobacterium geofontis sp. nov., a hyperthermophilic, sulfate-reducing bacterium isolated from Obsidian Pool, Yellowstone National Park
574	Mori	2003	A novel lineage of sulfate-reducing microorganisms: Themodesulfobiaceae farm. no., Thermodesulfobium narugense, gen. nov., sp. nov., a new thermophilic isolate from a hot spring
575	Chung	2000	Thermus igniterrae sp. nov. and Thermus antranikianii sp. nov., two new species from Iceland
576	Bjornsdottir	2009	Thermus islandicus sp. nov., a mixotrophic sulfur-oxidizing bacterium isolated from the Torfajokull geothermal area
577	Williams	1996	Thermus oshimai sp. nov., Isolated from Hot Springs in Portugal, Iceland, and the Azores, and Comment on the Concept of a Limited Geographical Distribution of Themus Species
578	Stanton	1980	Treponema bryantii sp. nov., a Rumen Spirochete that Interacts with Cellulolytic Bacteria
579	Graber	2004	Description of Treponema azotonutricium sp. nov. and Treponema primitia sp. nov., the First Spirochetes Isolated from Termite Guts
580	Cwyk	1979	Treponema succinifaciens sp. nov., an Anaerobic spirochete from the swine intestine
581	Heyworth	1984	Pyrimidine metabolism in Trichomonas vaginalis
582	Beach	1990	Fatty acid and sterol metabolism of cultured Trichomonas vaginalis and Tritichomonas foetus
583	Petrin	1998	Clinical and Microbiological Aspects of Trichomonas vaginalis
584	Mack	1980	End products of carbohydrate metabolism in Trichomonas vaginalis
585	Muller	2012	Biochemistry and Evolution of Anaerobic Energy Metabolism in Eukaryotes
586	Linstead	1983	The pathway of arginine catabolism in the parasitic flagellate Trichomonas vaginalis
587	Tsukahara	1961	Respiratory metabolism of trichomonad vaginalis
588	Heyworth	1982	Purine metabolism in Trichomonas vaginalis
589	Yarlett	1988	Polyamine biosynthesis and inhibition in Trichomonas vaginalis
590	Kleydman	2004	Production of ammonia by Tritrichomonas foetus and Trichomonas vaginalis
591	Chapman	1999	Hydrogen peroxide is a product of oxygen consumption by Trichomonas vaginalis
592	Ninomiya	1952	The metabolism of Trichomonas vaginalis, with comparative aspects of Trichomonads
593	Lehker	1999	Trichomonad invasion of the mucous layer requires adhesions, mucinases, and motility
594	Ginger	2007	Comparative genomics of trypanosome metabolism
595	Rogerson	1980	Catabolic metabolic in Trypanosoma cruzi
596	Bringaud	2006	Energy metabolism of typanosomatids: Adaptation to available carbon sources
597	Silber	2002	Active Transport of L-Proline in Trypanosoma cruzi
598	Taylor	2008	Validation of spermidine synthase as a drug target in African trypanosomes
599	Oliveira	2000	Inositol metabolism in Trypanosoma cruzi: Potential target for chemotherapy against chagas disease
600	Silber	2005	Amino Acid Metabolic Routes in Trypanosoma cruzi: Possible Therapeutic Targets Against Chagas’ Disease
601	Bosshard	2002	Turicibacter sanguinis gen. nov., sp. nov., a novel anaerobic, Gram-positive bacterium
602	Chung	2009	Varibaculum cambriense Infections in Hong Kong, China, 2006
603	Denariaz	1989	A Halophilic Denitrifier, Bacillus halodenitrificans sp. nov.
604	Yoon	2004	Transfer of Bacillus halodenitrificans Denariaz et al. 1989 to the genus Virgibacillus as Virgibacillus halodenitrificans comb. nov.
605	Sharpe	1972	Some Slime-Forming Heterofermentative Species of the Genus Lactobacillus
606	Choi	2002	Weissella kimchii sp. nov., a novel lactic acid bacterium from kimchi
607	Tohno	2014	Aerococcus vaginalis sp. nov., isolated from the vaginal mucosa of a beef cow, and emended descriptions of Aerococcus suis, Aerococcus viridans, Aerococcus urinaeequi, Aerococcus urinaehominis, Aerococcus urinae, Aerococcus christensenii and Aerococcus sanguinicola
608	Deibel	1960	Comparative study of Gaffkya homari, Aerococcus viridans, tetrad-forming cocci from meat curing brines, and the genus Pediococcus
609	Sakamoto	2009	Butyricimonas synergistica gen. nov., sp. nov. and Butyricimonas virosa sp. nov., butyric acid-producing bacteria in the family ‘Porphyromonadaceae’ isolated from rat faeces
610	Sakamoto	2014	Butyricimonas faecihominis sp. nov. and Butyricimonas paravirosa sp. nov., isolated from human faeces, and emended description of the genus Butyricimonas
611	Cooke	1927	A type of urea-splitting bacterium found in the human intestinal tract
612	Collins	1987	Transfer of Brevibacterium ammoniagenes (Cooke and Keith) to the Genus Corynebacterium as Corynebacterium ammoniagenes comb. nov.
613	Wilkins	1974	Eubacterium plexicaudatum sp. nov., an Anaerobic Bacterium with a sub polar tuft of flagella, isolated from a mouse cecum
614	Dent	1982	Lactobacillus animalis sp. nov., a New Species ofLactobacillus from the Alimentary Canal of Animals
615	Wood	1992	Genera of Lactic Acid Bacteria
616	Schleifer	1983	Elevation of Staphylococcus sciuri subsp. lentus (Kloos et al.) to Species Status: Staphylococcus lentus (Kloos et al.) comb. nov.
617	Cook	1994	Emendation of the Description of Acidaminococcus fermentans, a trans-Aconitate- and Citrate-Oxidizing Bacterium
618	Miller	1970	Nutritional Requirements for Growth of Aerococcus viridans
619	Bergaust	2008	Transcription and activities of NOx reductases in Agrobacterium tumefaciens: the influence of nitrate, nitrite and oxygen availability; Agrobacterium tumefaciens C58 Uses ActR and FnrN To Control nirK and nor Expression
620	Weelink	2008	Alicycliphilus denitrificans gen. nov., sp. nov., a cyclohexanol-degrading, nitrate-reducing b-proteobacterium; Isolation and Characterization of Alicycliphilus denitrificans Strain BC, Which Grows on Benzene with Chlorate as the Electron Acceptor
621	Schwiertz	2002	Anaerostipes caccae gen. nov., sp. nov., a New Saccharolytic, Acetate-utilising, Butyrate-producing Bacterium from Human Faeces
622	Karlsson	2011	Prospects for systems biology and modeling of the gut microbiome
623	Sirotek	2004	Fermentation of pectin and glucose, and activity of pectin-degrading enzymes in the rabbit caecal bacterium Bacteroides caccae
624	Christophersen	2013	Xylo-Oligosaccharides and Inulin Affect Genotoxicity and Bacterial Populations Differently in a Human Colonic Simulator Challenged with Soy Protein
625	Gibson	1993	Sulphate reducing bacteria and hydrogen metabolism in the human large intestine
626	Tannock	1977	Characteristics of Bacteroides Isolates from the Cecum of Conventional Mice
627	Reilly	1980	The carbon dioxide requirements of anaerobic bacteria
628	Balamurugan	2008	Real-time polymerase chain reaction quantification ofspecific butyrate-producing bacteria,Desulfovibrio andEnterococcus faecalis in the feces of patients withcolorectal cancer
629	Vandamme	1994	New Perspectives in the Classification of the Flavobacteria: Description of Chryseobacterium gen. nov., Bergeyella gen. nov., and Empedobacter norn. rev.
630	Holmes	1986	Weeksella zoohelcum sp. nov. (Formerly Group IIj), from Human Clinical Specimens
631	Goodfellow	2012	Bergey’s Manual of Systematic Bacteriology, Volume 5: The Actinobacteria
632	Stanton	1991	Reclassification of Treponema hyodysenteriae and Treponema innocens in a New Genus, Serpula gen. nov., as Serpula hyodysenteriae comb. nov. and Serpula innocens comb. nov.
633	Donohoe	2011	The microbiome and butyrate regulate energy metabolism and autophagy in the mammalian colon
634	Fardeau	2004	Isolation from oil reservoirs of novel thermophilic anaerobes phylogenetically related to Thermoanaerobacter subterraneus: reassignment of T. subterraneus, Thermoanaerobacter yonseiensis, Thermoanaerobacter tengcongensis and Carboxydibrachium pacificum to Caldanaerobacter subterraneus gen. nov., sp. nov., comb. nov. as four novel subspecies
635	Colina	1996	Evidence for Degradation of Gastrointestinal Mucin by Candida albicans Secretory Aspartyl Proteinase
636	Leadbetter	1979	Capnocytophaga:New Genus of Gram-Negative Gliding Bacteria I. General Characteristics, Taxonomic Considerations and Significance
637	Pfennig	1968	Chlorobium phaeobacteroides nov. spec. und C. phaeovibrioides nov. spec.
638	Bergstein	1979	Uptake and metabolism of organic compounds by Chlorobium phaeobacteroides isolated from Lake Kinneret
639	Hofman	1985	Ecological significance of acetate assimilation by Chlorobium phaeobacteroides
640	Weber	2006	Anaerobic Nitrate-Dependent Iron(II) Bio-Oxidation by a Novel Lithoautotrophic Betaproteobacterium, Strain 2002
641	Srivastava	2003	Understanding Bacteria (Table 6.2 Type of fermentative pathway in different bacteria)
642	Fuchs	1957	The Nutritional Requirements of Clostridium perfringens
643	Steer	2001	Clostridium hathewayi sp. nov., from Human Faeces
644	Hall	1927	Bacillus sordellii, a cause of malignant edema in man
645	Ramachandran	2008	Hydrogen production and end-product synthesis patterns by Clostridium termitidis strain CT1112 in batch fermentation cultures with cellobiose or a-cellulose
646	Salminen	2004	Lactic Acid Bacteria: Microbiological and Functional Aspects, Third Edition
647	Mackie	1991	Lipid metabolism in anaerobic ecosystems
648	Widdel	1977	A New Anaerobic, Sporing, Acetate-Oxidizing, Sulfate-Reducing Bacterium, Desulfotomaculum (emend.)acetoxidans
649	Junier	2010	The genome of the Gram-positive metal- and sulfate-reducing bacterium Desulfotomaculum reducens strain MI-1
650	Gibson	1988	Occurrence of sulphate-reducing bacteria in human faeces and the relationship of dissimilatory sulphate reduction to methanogenesis in the large gut
651	Sakaguchi	2002	Desulfovibrio magneticus sp. nov., a novel sulfate-reducing bacterium that produces intracellular single-domain-sized magnetite particles
652	Zellner	1989	Desulfovibrio simplex spec. nov., a new sulfate-reducing bacterium from a sour whey digester
653	Wolfe	2005	The acetate switch
654	Mackie	1979	Changes in Lactate-Producing and Lactate-Utilizing Bacteria in Relation to pH in the Rumen of Sheep During Stepwise Adaptation to a High-Concentrate Diet
655	Duncan	2002	Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov.
656	Scheifinger	1973	Propionate formation from cellulose and soluble sugars by combined cultures of Bacteroides succinogenes and Selenomonas ruminantium
657	Collins	1994	The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations.
658	Van Trappen	2004	Flavobacterium degerlachei sp. nov., Flavobacterium frigoris sp. nov. and Flavobacterium micromati sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes
659	Zhilina	1992	Ecology, Physiology and Taxonomy Studies on a New Taxon of Haloanaerobiaceae, Haloincola saccharolytica gen. nov., sp. nov.
660	Collins	1993	Phylogenetic Analysis of Some Aerococcus-Like Organisms from Clinical Sources: Description of Helcococcus kunzii gen. nov., sp. nov.
661	Vandamme	1991	Revision of Campylobacter, Helicobacter, and Wolinella Taxonomy: Emendation of Generic Descriptions and Proposal of Arcobacter gen. nov.
662	De Maesschalck	2014	Faecalicoccus acidiformans gen. nov., sp. nov., isolated from the chicken caecum, and reclassification of Streptococcus pleomorphus (Barnes et al. 1977), Eubacterium biforme (Eggerth 1935) and Eubacterium cylindroides (Cato et al. 1974) as Faecalicoccus pleomorphus comb. nov., Holdemanella biformis gen. nov., comb. nov. and Faecalitalea cylindroides gen. nov., comb. nov., respectively, within the family Erysipelotrichaceae
663	Hedberg	2012	Lachnoanaerobaculum gen. nov., a new genus in the Lachnospiraceae: characterization of Lachnoanaerobaculum umeaense gen. nov., sp. nov., isolated from the human small intestine, and Lachnoanaerobaculum orale sp. nov., isolated from saliva, and reclassification of Eubacterium saburreum (Prevot 1966) Holdeman and Moore 1970 as Lachnoanaerobaculum saburreum comb. nov.
664	Gummalla	1999	Tryptophan Catabolism by Lactobacillus casei and Lactobacillus helveticus Cheese Flavor Adjuncts
665	Ishii	1999	Identification of Compounds Causing Symbiotic Growth of Lactobacillus paracasei subsp. tolerans and Kluyveromyces marxianus var. lactis in Chigo, Inner Mongolia, China
666	Teusink	2005	In silico reconstruction of the metabolic pathways of Lactobacillus plantarum: comparing predictions of nutrient requirements with those from growth experiments.
667	Golbach	2007	Adaptation of Lactobacillus rhamnosus riboflavin assay to microtiter plates
668	Rogosa	1953	Species differentiation of oral lactobacilli from man including description of Lactobacillus salivarius nov spec and lactobacillus Cellobiosus nov spec.
669	Embley	1989	Lactobacillus vaginalis sp. nov. from the Human Vagina
670	Flahaut	2013	Genome-scale metabolic model for Lactococcus lactis MG1363 and its application to the analysis of flavor formation
671	Liu	2011	Molecular Detection of Human Bacterial Pathogens
672	Haroun	1982	Reclassification of Bacteroides hypermegas (Harrison and Hansen) in a New Genus Megamonas, as Megamonas hypermegas comb. nov.
673	Bailey	1982	Reclassification of ‘Streptococcus pluton’ (White)in a new genus Melissococcus, as Melissococcus pluton nom. rev.; comb. nov.
674	Garrity	2001	Bergey’s Manual of Systematic Bacteriology: Volume One : The Archaea and the Deeply Branching and Phototrophic Bacteria
675	Bordbar	2010	Insight into human alveolar macrophage and m. tuberculosis interactions via metabolic reconstructions
676	Pastink	2009	Genome-scale model of Streptococcus thermophilus LMG18311 for metabolic comparison of lactic acid bacteria.
677	Lee	2013	Oscillibacter ruminantium sp. nov., isolated from the rumen of Korean native cattle
678	Larocque	2014	A curated C. difficile strain 630 metabolic network: prediction of essential targets and inhibitors
679	Stanton	1983	Roseburia cecicola gen. nov., sp. nov., a Motile, Obligately Anaerobic Bacterium from a Mouse Cecum
680	Gradel	1972	Fermentation of isolated pectin and pectin from intact forages by pure cultures of rumen bacteria.
681	Yoon	2013	Shewanella spp. Use Acetate as an Electron Donor for Denitrification but Not Ferric Iron or Fumarate Reduction
682	Ahmed	1988	Nutritional requirements of shigellae for growth in a minimal medium.
683	Slobodkin	1999	Thermoanaerobater siderophilus sp. nov., a novel dissimilarity Fe(III)-reducing, anaerobic, thermophilic bacterium
684	Alain	2010	Thermodesulfatator atlanticus sp. nov., a thermophilic, chemolithoautotrophic, sulfate- reducing bacterium isolated from a Mid-Atlantic Ridge hydrothermal vent
685	Jeanthon	2002	Thermodesulfobacterium hydrogeniphilum sp. nov., a thermophilic, chemolithoautotrophic, sulfate-reducing bacterium isolated from a deep-sea hydrothermal vent at Guaymas Basin, and emendation of the genus Thermodesulfobacterium
686	Nobre	1996	Transfer of Thermus ruber (Loginova et al. 1984), Themus silvans (Tenreiro et al. 1999, and Themus chliarophilus (Tenreiro et al. 1995) to Meiothemzus gen. nov. as Meiothermus ruber comb. nov., Meiothermus silvanus comb. nov., and Meiothermus chliarophilus comb. nov., Respectively, and Emendation of the Genus Thermus
687	Kane	1978	Early Detection and Identification of Trichophyton verrucosum
688	Hall	2003	Characterization of some actinomyces-like isolates from human clinical sources: description of Varibaculum cambriensis gen nov, sp nov.
689	Rogosa	1964	THE GENUS VEILLONELLA II. Nutritional Studies
690	Boyer	2013	Bile Formation and Secretion
691	Alnouti	2008	Quantitative-profiling of bile acids and their conjugates in mouse liver, bile, plasma, and urine using LC-MS/MS.
692	Birchenough	2015	New developments in goblet cell mucus secretion and function
693	Nakano	1997	Characterization of anaerobic fermentative growth of Bacillus subtilis: identification of fermentation end products and genes required for growth.
694	Bezkorovainy	1989	Biochemistry and Physiology of Bifidobacteria
695	Duerden	1989	A comparison of Bacteroides ureolyticus isolates ftom different clinical sources
696	Sarantinopoulos	2001	Citrate metabolism by Enterococcus faecalis FAIR-E 229
697	Kim	2005	Dissimilatory Fe(III) reduction by an electrochemically active lactic acid bacterium phylogenetically related to Enterococcus gallina um isolated from submerged soil
698	Jacobson	1997	Cellulase activity of Leishmania major in the sandfly vector and in culture.
699	Scherer	1981	Effect of trace elements and vitamins on the growth of Methanosarcina barkeri
700	Boden	2012	Emended description of the genus Methylophaga Janvier et al. 1985
701	Bowman	1993	Revised Taxonomy of the Methanotrophs: Description of Methylobacter gen. nov., Emendation of Methylococcus, Validation of Methylosinus and Methylocystis Species, and a Proposal that the Family Methylococcaceae Includes Only the Group I Methanotrophs
702	Cato	1983	Synonymy of Strains of “Lactobacillus acidophilus” Group A2 (Johnson et 81. 1980) with the Type Strain of Lactobacillus crispatus (Brygoo and Aladame 1953) Moore and Holdeman 1970
703	Chervaux	2000	Physiological study of Lactobacillus delbrueckii subsp. bulgaricus strains in a novel chemically defined medium.
704	Helanto	2006	Characterization of genes involved in fructose utilization by Lactobacillus fermentum
705	Francl	2010	The PTS transporters of Lactobacillus gasseri ATCC 33323
706	Su	2011	Physiological and fermentation properties of Bacillus coagulans and a mutant lacking fermentative lactate dehydrogenase activity
707	De Clerck	2004	Polyphasic characterization of Bacillus coagulans strains, illustrating heterogeneity within this species, and emended description of the species.
708	Creczynski-Pasa	2004	Energetic metabolism of Chromobacterium violaceum
709	Takai	2006	Sulfurimonas paralvinellae sp. nov., a novel mesophilic, hydrogen- and sulfur-oxidizing chemolithoautotroph within the Epsilonproteobacteria isolated from a deep-sea hydrothermal vent polychaete nest, reclassification of Thiomicrospira denitrificans as Sulfurimonas denitrificans comb. nov. and emended description of the genus Sulfurimonas
710	Kopke	2013	Clostridium difficile is an autotrophic bacterial pathogen.
711	Christiansen	1996	Desulfitobacterium hafniense sp. nov., an Anaerobic, Reductively Dechlorinating Bacterium
712	Pfennig	1976	Desulfuromonas acetoxidans gen. nov. and sp. nov., a new anaerobic, sulfur-reducing, acetate-oxidizing bacterium.
713	Atherly	2014	Genotypic and Phenotypic comparison of Bacteroides ovatus, B. thetaiotaomicron, and B. xylanisolvens isolates obtained from cow, goat, human, and pig feces
714	Akagi	1967	Electron carries for the phosphoroclastic reaction of Desulfovibrio desulfuricans.
715	Lewis	2012	Host sialoglycans and bacterial sialidases: a mucosal perspective
716	Reddy	1983	Wheat straw hemicelluloses: Composition and fermentation by human colon bacteroides
717	Postgate	1966	Classification of Desulfovibrio species, the nonsporulating sulfate-reducing bacteria.
718	Warren	2005	Biochemical differentiation and comparison of Desulfovibrio species and other phenotypically similar genera.
719	Halpern	1961	Utilization of L-glutamic and 2-oxoglutaric acid as sole sources of carbon by Escherichia coli.
720	Hebert	2000	Nutritional requirements and nitrogen-dependent regulation of proteinase activity of Lactobacillus helveticus CRL 1062.
721	Horn	2005	Growth of Lactobacillus plantarum in media containing hydrolysates of fish viscera
722	Kalyuzhnaya	2006	Methylotenera mobilis gen. nov., sp. nov., an obligately methylamine-utilizing bacterium within the family Methylophilaceae
723	Helaszek	1991	Cellobiose uptake and metabolism by Ruminococcus flavefaciens.
724	Tong	2003	Streptococcus oligofermentans sp. nov., a novel oral isolate from caries-free humans
725	Feio	2004	Desulfovibrio alaskensis sp. nov., a sulphate- reducing bacterium from a soured oil reservoir
726	Niamsup	2003	Lactobacillus thermotolerans sp. nov., a novel thermotolerant species isolated from chicken faeces
727	Le Gall	1963	A New Species of Desulfovibrio
728	Collins	2000	An unusual Streptococcus from human urine, Streptococcus urinalis sp. nov.
729	Giebel	1990	Isolation of Mycoplasma moatsii from the Intestine of Wild Norway Rats (Rattus norvegicus)
730	Baele	2003	Lactobacillus ingluviei sp. nov., isolated from the intestinal tract of pigeons
731	Chander	2012	Phenotypic and molecular characterization of a novel strongly hemolytic Brachyspira species, provisionally designated “Brachyspira hampsonii ”
732	Schlegel	2000	Streptococcus infantarius sp. nov., Streptococcus infantarius subsp. infantarius subsp. nov. and Streptococcus infantarius subsp. coli subsp. nov., isolated from humans and food
733	Kloos	1976	Characterization of Staphylococcus sciuri sp.nov. and its subspecies
734	Robert	2007	Bacteroides cellulosilyticus sp. nov., a cellulolytic bacterium from the human gut microbial community
735	Chassard	2007	Characterization of the xylan-degrading microbial community from human faeces
736	Salyers	1979	Energy sources of major intestinal fermentative anaerobes
737	Attwood	1996	Clostridium proteoclasticum sp. nov., a Novel Proteolytic Bacterium from the Bovine Rumen
738	Gylswyk	1986	Description and Designation of a Neotype Strain of Eubacterium cellulosolvens (Cillobacterium cellulosolvens Bryant, Small, Bouma and Robinson) Holdeman and Moore
739	Lopez-Siles	2011	Cultured Representatives of Two Major Phylogroups of Human Colonic Faecalibacterium prausnitzii Can Utilize Pectin, Uronic Acids, and Host-Derived Substrates for Growth
740	Wallnofer	1967	Pathway of Propionate Formation in Bacteroides ruminicola
741	Zanoni	1987	Lactobacillus pentosus (Fred, Peterson, and Anderson) sp. nov., nom, rev.
742	Paterek	1988	Methanohalophilus mahii gen. nov. sp. nov. a Methylotrophic Halophilic Methanogen
743	Dedysh	2005	Methylocella Species Are Facultatively Methanotrophic
744	Cho	2003	Parvularcula bermudensis gen. nov., sp. nov., a marine bacterium that forms a deep branch in the a-Proteobacteria
745	Nicholson	2012	Host-Gut Microbiota Metabolic Interactions
746	Seetharam	1982	Absorption and Transport of Cobalamin (Vitamin B12)
747	Mekhjian	1979	Colonic Absorption of Unconjugated Bile Acids
748	Davila	2013	Re-print of “Intestinal luminal nitrogen metabolism: Role of the gut microbiota and consequences for the host”
749	Pal	2005	Hexachlorocyclohexane-degrading bacterial strains Sphingomonas paucimobilis B90A, UT26 and Sp+, having similar lin genes, represent three distinct species, Sphingobium indicum sp. nov., Sphingobium japonicum sp. nov. and Sphingobium francense sp. nov., and reclassification of [Sphingomonas] chungbukensis as Sphingobium chungbukense comb. nov.
750	Houghton	2015	Thermorudis pharmacophila sp. nov., a novel member of the class Thermomicrobia isolated from geothermal soil, and emended descriptions of Thermomicrobium roseum, Thermomicrobium carboxidum, Thermorudis peleae and Sphaerobacter thermophilus
751	Shiratori	2009	Clostridium clariflavum sp. nov. and Clostridium caenicola sp. nov., moderately thermophilic, cellulose-/cellobiose-digesting bacteria isolated from methanogenic sludge
752	Madden	1982	Isolation and Characterization of an Anaerobic, Cellulolytic Bacterium, Clostridium papyrosolvens sp. nov.
753	Warnick	2002	Clostridium phytofermentans sp. nov., a cellulolytic mesophile from forest soil
754	Motamedi	1998	Desulfovibrio aespoeensis sp. nov., a mesophilic sulfate-reducing bacterium from deep groundwater at Aspo hard rock laboratory, Sweden
755	Khelaifia	2011	Desulfovibrio piezophilus sp. nov., a piezophilic, sulfate-reducing bacterium isolated from wood falls in the Mediterranean Sea
756	Youn	2009	Characterization of the Dicarboxylate Transporter DctA in Corynebacterium glutamicum
757	Pokusaeva	2011	Carbohydrate metabolism in Bifidobacteria
758	Shah	1988	Proposal for Reclassification of Bacteroides asaccharolyticus, Bacteroides gingivalis, and Bacteroides endodontalis in a New Genus, Porphyromonas
759	Marshall	1967	Growth of Bacillus coagulans in Chemically Defined Media
760	Holländer	1975	Energy metabolism of some representatives of the Haemophilus group
761	Jensen	1986	Bacteroides pectinophilus sp. nov. and Bacteroides galacturonicus sp. nov.: Two Pectinolytic Bacteria from the Human Intestinal Tract
762	Kindberg	1987	Menaquinone production and utilization in germ-free rats after inoculation with specific organisms
763	Song	2004	Clostridium bartlettii sp. nov., isolatedfrom human faeces
764	Marquet	2009	Lactate has the potential to promote hydrogen sulphide formation in the human colon
765	Loubinoux	2002	Reclassification of the only species of the genus Desulfomonas, Desulfomonas pigra, as Desulfovibrio piger comb. nov.
766	Scott	2013	Prebiotic stimulation of human colonic butyrate-producing bacteria and bifidobacteria, in vitro
767	Shetty	2018	Reclassification of Eubacterium hallii as Anaerobutyricum hallii gen. nov., comb. nov., and description of Anaerobutyricum soehngenii sp. nov., a butyrate and propionate-producing bacterium from infant faeces
768	Cambell	1966	Desulfovibrio africanus sp. n., a New Dissimilatory Sulfate-reducing Bacterium
769	Abildgaard	2006	Desulfovibrio alkalitolerans sp. nov., a novel alkalitolerant, sulphate-reducing bacterium isolated from district heating water

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Online-only Table 2 List of literature sources of metabolic information used for NJC19 construction.

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