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Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement

Sequencing and genomic diversification of five allopolyploid cotton species provide insights into polyploid genome evolution and epigenetic landscapes for cotton improvement.

Z. Jeffrey Chen
Avinash Sreedasyam
Jeremy Schmutz
ResearchOpen Access20 Apr 2020
Nature Genetics

Volume: 52, P: 525-533
Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass

The genome of the biofuel crop switchgrass (Panicum virgatum) reveals climate–gene–biomass associations that underlie adaptation in nature and will facilitate improvements of the yield of this crop for bioenergy production.

John T. Lovell
Alice H. MacQueen
Jeremy Schmutz
ResearchOpen Access27 Jan 2021
Nature

Volume: 590, P: 438-444
The chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis

Black pepper (Piper nigrum) belongs to the long-isolated lineage of basal angiosperm and its fruit has been used for food spice and phytomedicines for thousands of years. Here, the authors assemble the reference genome of this species and analyze gene families associated with piperine biosynthesis.

Lisong Hu
Zhongping Xu
Shuangxia Jin
ResearchOpen Access16 Oct 2019
Nature Communications

Volume: 10, P: 1-11
Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement

Two draft sequences of Gossypium hirsutum, the most widely cultivated cotton species, provide insights into genome structure, genome rearrangement, gene evolution and cotton fiber biology.

Tianzhen Zhang
Yan Hu
Z Jeffrey Chen
ResearchOpen Access20 Apr 2015
Nature Biotechnology

Volume: 33, P: 531-537
Genome resources for three modern cotton lines guide future breeding efforts

Analyses of three newly sequenced modern cultivar cotton genomes revealed sequence and structural variation alongside traces of ancient and ongoing introgressions. Moreover, transcriptome analysis pointed at unique fibre quality traits of cultivars.

Avinash Sreedasyam
John T. Lovell
Jeremy Schmutz
ResearchOpen Access30 May 2024
Nature Plants

Volume: 10, P: 1039-1051
Sub genome anchored physical frameworks of the allotetraploid Upland cotton (Gossypium hirsutum L.) genome, and an approach toward reference-grade assemblies of polyploids

Christopher A. Saski
Brian E. Scheffler
Z. Jeffery Chen
ResearchOpen Access10 Nov 2017
Scientific Reports

Volume: 7, P: 1-14
Microevolutionary dynamics of eccDNA in Chinese hamster ovary cells grown in fed-batch cultures under control and lactate-stressed conditions

Dylan G. Chitwood
Qinghua Wang
Christopher A. Saski
ResearchOpen Access21 Jan 2023
Scientific Reports

Volume: 13, P: 1-16
Defining the ‘HoneySweet’ insertion event utilizing NextGen sequencing and a de novo genome assembly of plum (Prunus domestica)

Ann M. Callahan
Tetyana N. Zhebentyayeva
Christopher D. Dardick
ResearchOpen Access01 Jan 2021
Horticulture Research

Volume: 8, P: 1-13
A fruit firmness QTL identified on linkage group 4 in sweet cherry (Prunus avium L.) is associated with domesticated and bred germplasm

Lichun Cai
José Quero-García
Amy Iezzoni
ResearchOpen Access21 Mar 2019
Scientific Reports

Volume: 9, P: 1-14
Genetic characterization of worldwide Prunus domestica (plum) germplasm using sequence-based genotyping

Tetyana Zhebentyayeva
Vijay Shankar
Chris Dardick
ResearchOpen Access01 Jan 2019
Horticulture Research

Volume: 6, P: 1-13
Genome-wide SNP identification in Prunus rootstocks germplasm collections using Genotyping-by-Sequencing: phylogenetic analysis, distribution of SNPs and prediction of their effect on gene function

Verónica Guajardo
Simón Solís
María Ángeles Moreno
ResearchOpen Access30 Jan 2020
Scientific Reports

Volume: 10, P: 1-14
MicroRNA396-mediated alteration in plant development and salinity stress response in creeping bentgrass

Shuangrong Yuan
Junming Zhao
Hong Luo
ResearchOpen Access01 May 2019
Horticulture Research

Volume: 6, P: 1-13

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Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement

Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass

The chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis

Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement

Genome resources for three modern cotton lines guide future breeding efforts

Sub genome anchored physical frameworks of the allotetraploid Upland cotton (Gossypium hirsutum L.) genome, and an approach toward reference-grade assemblies of polyploids

Microevolutionary dynamics of eccDNA in Chinese hamster ovary cells grown in fed-batch cultures under control and lactate-stressed conditions

Defining the ‘HoneySweet’ insertion event utilizing NextGen sequencing and a de novo genome assembly of plum (Prunus domestica)

A fruit firmness QTL identified on linkage group 4 in sweet cherry (Prunus avium L.) is associated with domesticated and bred germplasm

Genetic characterization of worldwide Prunus domestica (plum) germplasm using sequence-based genotyping

Genome-wide SNP identification in Prunus rootstocks germplasm collections using Genotyping-by-Sequencing: phylogenetic analysis, distribution of SNPs and prediction of their effect on gene function

MicroRNA396-mediated alteration in plant development and salinity stress response in creeping bentgrass

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