Large-scale whole-genome resequencing unravels the domestication history of Cannabis sativa DOI Creative Commons
Guangpeng Ren, Xu Zhang, Ying Li

et al.

Science Advances, Journal Year: 2021, Volume and Issue: 7(29)

Published: July 1, 2021

Cannabis sativa has long been an important source of fiber extracted from hemp and both medicinal recreational drugs based on cannabinoid compounds. Here, we investigated its poorly known domestication history using whole-genome resequencing 110 accessions worldwide origins. We show that C. was first domesticated in early Neolithic times East Asia all current drug cultivars diverged ancestral gene pool currently represented by feral plants landraces China. identified candidate genes associated with traits differentiating cultivars, including branching pattern cellulose/lignin biosynthesis. also found evidence for loss function involved the synthesis two major biochemically competing cannabinoids during selection increased production or psychoactive properties. Our results provide a unique global view offer valuable genomic resources ongoing functional molecular breeding research.

Language: Английский

Reference genome sequences of two cultivated allotetraploid cottons, Gossypium hirsutum and Gossypium barbadense DOI Creative Commons
Maojun Wang, Lili Tu, Daojun Yuan

et al.

Nature Genetics, Journal Year: 2018, Volume and Issue: 51(2), P. 224 - 229

Published: Nov. 26, 2018

Allotetraploid cotton species (Gossypium hirsutum and Gossypium barbadense) have long been cultivated worldwide for natural renewable textile fibers. The draft genome sequences of both are available but they highly fragmented incomplete1-4. Here we report reference-grade assemblies annotations G. accession Texas Marker-1 (TM-1) barbadense 3-79 by integrating single-molecule real-time sequencing, BioNano optical mapping high-throughput chromosome conformation capture techniques. Compared with previous assembled genomes1,3, these show considerable improvements in contiguity completeness regions high content repeats such as centromeres. Comparative genomics analyses identify extensive structural variations that probably occurred after polyploidization, highlighted large paracentric/pericentric inversions 14 chromosomes. We constructed an introgression line population to introduce favorable segments from hirsutum, allowing us 13 quantitative trait loci associated superior fiber quality. These resources will accelerate evolutionary functional genomic studies inform future breeding programs improvement.

Language: Английский

Citations

653
Resequencing of 243 diploid cotton accessions based on an updated A genome identifies the genetic basis of key agronomic traits DOI
Xiongming Du, Gai Huang, Shoupu He

et al.

Nature Genetics, Journal Year: 2018, Volume and Issue: 50(6), P. 796 - 802

Published: May 4, 2018

Language: Английский

Citations

467
Resequencing a core collection of upland cotton identifies genomic variation and loci influencing fiber quality and yield DOI
Zhiying Ma, Shoupu He, Xingfen Wang

et al.

Nature Genetics, Journal Year: 2018, Volume and Issue: 50(6), P. 803 - 813

Published: May 4, 2018

Language: Английский

Citations

414
Genomic analyses in cotton identify signatures of selection and loci associated with fiber quality and yield traits DOI
Lei Fang, Qiong Wang, Yan Hu

et al.

Nature Genetics, Journal Year: 2017, Volume and Issue: 49(7), P. 1089 - 1098

Published: June 5, 2017

Language: Английский

Citations

360
Whole-genome resequencing reveals Brassica napus origin and genetic loci involved in its improvement DOI Creative Commons
Kun Lu, Lijuan Wei, Xiaolong Li

et al.

Nature Communications, Journal Year: 2019, Volume and Issue: 10(1)

Published: March 11, 2019

Abstract Brassica napus (2 n = 4 x 38, AACC) is an important allopolyploid crop derived from interspecific crosses between rapa 2 20, AA) and oleracea 18, CC). However, no truly wild B. populations are known; its origin improvement processes remain unclear. Here, we resequence 588 accessions. We uncover that the A subgenome may evolve ancestor of European turnip C common kohlrabi, cauliflower, broccoli, Chinese kale. Additionally, winter oilseed be original form . Subgenome-specific selection defense-response genes has contributed to environmental adaptation after formation species, whereas asymmetrical subgenomic led ecotype change. By integrating genome-wide association studies, signals, transcriptome analyses, identify associated with improved stress tolerance, oil content, seed quality, improvement. They candidates for further functional characterization genetic

Language: Английский

Citations

344
Gene retention, fractionation and subgenome differences in polyploid plants DOI
Feng Cheng, Jian Wu, Xu Cai

et al.

Nature Plants, Journal Year: 2018, Volume and Issue: 4(5), P. 258 - 268

Published: April 25, 2018

Language: Английский

Citations

314
Genome sequence of Gossypium herbaceum and genome updates of Gossypium arboreum and Gossypium hirsutum provide insights into cotton A-genome evolution DOI Creative Commons
Gai Huang, Zhiguo Wu,

Richard G. Percy

et al.

Nature Genetics, Journal Year: 2020, Volume and Issue: 52(5), P. 516 - 524

Published: April 13, 2020

Abstract Upon assembling the first Gossypium herbaceum (A 1 ) genome and substantially improving existing arboreum 2 hirsutum ((AD) genomes, we showed that all A-genomes may have originated from a common ancestor, referred to here as A 0 , which was more phylogenetically related than . Further, allotetraploid formation shown preceded speciation of Both evolved independently, with no ancestor–progeny relationship. Gaussian probability density function analysis indicates several long-terminal-repeat bursts occurred 5.7 million years ago less 0.61 contributed compellingly A-genome size expansion, evolution. Abundant species-specific structural variations in genic regions changed expression many important genes, led fiber cell improvement (AD) Our findings resolve controversial concepts surrounding origins provide valuable genomic resources for cotton genetic improvement.

Language: Английский

Citations

310
Stepwise selection on homeologous PRR genes controlling flowering and maturity during soybean domestication DOI
Sijia Lü, Lidong Dong, Chao Fang

et al.

Nature Genetics, Journal Year: 2020, Volume and Issue: 52(4), P. 428 - 436

Published: March 30, 2020

Language: Английский

Citations

299
Insights into Drought Stress Signaling in Plants and the Molecular Genetic Basis of Cotton Drought Tolerance DOI Creative Commons
Tahir Mahmood,

Shiguftah Khalid,

Muhammad Abdullah

et al.

Cells, Journal Year: 2019, Volume and Issue: 9(1), P. 105 - 105

Published: Dec. 31, 2019

Drought stress restricts plant growth and development by altering metabolic activity biological functions. However, plants have evolved several cellular molecular mechanisms to overcome drought stress. tolerance is a multiplex trait involving the activation of signaling differentially expressed responses. Broadly, comprises two steps: sensing/signaling various parallel responses (including physiological, molecular, biochemical mechanisms) in plants. At level, induces oxidative overproduction reactive oxygen species (ROS), ultimately causing cell membrane rupture stimulating pathways (ROS, mitogen-activated-protein-kinase, Ca

Language: Английский

Citations

292
Haplotype-resolved genome assembly provides insights into evolutionary history of the tea plant Camellia sinensis DOI Creative Commons
Xingtan Zhang, Shuai Chen, Longqing Shi

et al.

Nature Genetics, Journal Year: 2021, Volume and Issue: 53(8), P. 1250 - 1259

Published: July 15, 2021

Abstract Tea is an important global beverage crop and largely clonally propagated. Despite previous studies on the species, its genetic evolutionary history deserves further research. Here, we present a haplotype-resolved assembly of Oolong tea cultivar, Tieguanyin. Analysis allele-specific expression suggests potential mechanism in response to mutation load during long-term clonal propagation. Population genomic analysis using 190 Camellia accessions uncovered independent histories parallel domestication two widely cultivated varieties, var. sinensis assamica . It also revealed extensive intra- interspecific introgressions contributing diversity modern cultivars. Strong signatures selection were associated with biosynthetic metabolic pathways that contribute flavor characteristics as well genes likely involved Green Revolution industry. Our results offer molecular insights into provide resources facilitate gene editing enhance desirable traits crops.

Language: Английский

Citations

256