Table 3 Metagenomic-based Operational Taxonomic Units (mOTUs) associated with CH4 mitigation, H2 production and ethanol concentration as identified by Spearman’s Rank correlation coefficient (Rs) (data from main experiment).

From: The rumen microbiome inhibits methane formation through dietary choline supplementation

Taxonomy

mOTUa

Spearman Rs

P-value

BH padj

% average abundance

mOTUs negatively associated with CH4 production

Megasphaera elsdenii

ref_mOTU_v25_01516

− 0.743

 < 0.001

 < 0.001

6.246

Denitrobacterium detoxificans

ref_mOTU_v25_06442

− 0.683

 < 0.001

0.00205

0.098

Denitrobacterium detoxificans

rumen_mOTU_2272

− 0.674

 < 0.001

0.00235

0.078

unknown Lachnospiraceae

rumen_mOTU_727

− 0.640

 < 0.001

0.00456

0.239

Lachnospira multipara/pectinoschiza

ref_mOTU_v25_03833

− 0.617

0.00133

0.00695

0.938

Streptococcus equinus

ref_mOTU_v25_00901

− 0.540

0.00651

0.024

5.877

Lactobacillus ruminis

ref_mOTU_v25_01239

− 0.535

0.00711

0.026

1.608

Streptococcus sp.

ref_mOTU_v25_00902

− 0.487

0.016

0.046

0.107

mOTUs positively associated with H2 production

Enterococcus gallinarum/saccharolyticus

ref_mOTU_v25_03214

0.751

 < 0.001

0.020

4.062

Streptococcus sp.

ref_mOTU_v25_00902

0.740

 < 0.001

0.020

0.107

Streptococcus equinus

ref_mOTU_v25_00901

0.716

 < 0.001

0.020

5.877

Enterococcus avium

ref_mOTU_v25_02620

0.706

 < 0.001

0.020

6.564

Pseudomonas mendocina

ref_mOTU_v25_00237

0.700

 < 0.001

0.020

0.008

Clostridium botulinum/sporogenes

ref_mOTU_v25_01616

0.699

 < 0.001

0.020

0.003

Enterococcus sp.

ref_mOTU_v25_02783

0.688

 < 0.001

0.020

0.575

Pseudomonas sp.

ref_mOTU_v25_00235

0.671

 < 0.001

0.022

0.029

Pseudomonas guguanensis/mendocina

ref_mOTU_v25_00238

0.640

 < 0.001

0.026

0.211

unknown Alkaliphilus

rumen_mOTU_765

0.598

0.00202

0.039

3.506

Proteobacteria sp.

ref_mOTU_v25_00095

0.580

0.00299

0.043

0.003

unknown Clostridiales

rumen_mOTU_24

0.568

0.00378

0.048

0.029

unknown Clostridium_J

rumen_mOTU_2237

0.565

0.004

0.049

0.023

Streptococcus sp.

ref_mOTU_v25_00900

0.565

0.00401

0.049

0.015

unknown Methanobrevibacter

rumen_mOTU_404

0.563

0.00418

0.049

0.015

mOTUs positively associated with ethanol concentration

Megasphaera elsdenii

ref_mOTU_v25_01516

0.949

 < 0.001

 < 0.001

5.047

Lachnospira multipara/pectinoschiza

ref_mOTU_v25_03833

0.812

 < 0.001

0.016

0.665

Denitrobacterium detoxificans

rumen_mOTU_2272

0.784

 < 0.001

0.031

0.410

Denitrobacterium detoxificans

ref_mOTU_v25_06442

0.778

 < 0.001

0.031

0.000

unknown Lachnospiraceae

rumen_mOTU_727

0.773

 < 0.001

0.032

0.197

Selenomonas ruminantium

ref_mOTU_v25_04318

0.755

 < 0.001

0.042

0.024

Streptococcus sp.

ref_mOTU_v25_00902

0.746

 < 0.001

0.046

0.065

  1. Spearman Rs: Spearman rank correlation coefficient. BH padj: Benjamin Hochberg false discovery rate adjusted p-value. Inoculum was excluded from this analysis (n = 24) as no gas production measurements were available. In case of ethanol concentration, this analysis only includes inoculum and day 15 samples with corresponding hNMR metabolite data (n = 16). Only mOTU clusters that meet the required P < 0.05 and Benjamini–Hochberg padj < 0.05 cutoff are presented. aUnique mOTU ID within mOTUs database (https://motu-tool.org/).