De Novo Domestication: An Alternative Route toward New Crops for the Future

Molecular Plant, Journal Year: 2019, Volume and Issue: 12(5), P. 615 - 631

Published: April 15, 2019

Current global agricultural production must feed over 7 billion people. However, productivity varies greatly across the globe and is under threat from both increased competitions for land climate change associated environmental deterioration. Moreover, increase in human population size dietary changes are putting an ever greater burden on agriculture. The majority of this met by cultivation a very small number species, largely locations that differ their origin domestication. Recent technological advances have raised possibility de novo domestication wild plants as viable solution designing ideal crops while maintaining food security more sustainable low-input Here we discuss how discovery multiple key genes alongside development technologies accurate manipulation several target simultaneously renders route toward future.

Language: Английский

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Evolutionary Insights into the Nature of Plant Domestication

Current Biology, Journal Year: 2019, Volume and Issue: 29(14), P. R705 - R714

Published: July 1, 2019

Domestication is a co-evolutionary process that occurs when wild plants are brought into cultivation by humans, leading to origin of new species and/or differentiated populations critical for human survival. Darwin used domesticated as early models evolution, highlighting their variation and the key role selection in differentiation. Over last two decades, growing synthesis plant genetics, genomics, archaeobotany has led challenges old orthodoxies advent fresh perspectives on how crop domestication diversification proceed. I discuss four insights — general protracted process, unconscious (natural) plays prominent role, interspecific hybridization may be an important mechanism range expansion, similar genes across multiple underlies parallel/convergent phenotypic evolution between taxa. Insights evolutionary can help us developing varieties (and possibly even species) deal with current future environmental sustainable manner.

Language: Английский

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The population genetics of structural variants in grapevine domestication

Nature Plants, Journal Year: 2019, Volume and Issue: 5(9), P. 965 - 979

Published: Sept. 9, 2019

Language: Английский

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Phased diploid genome assemblies and pan-genomes provide insights into the genetic history of apple domestication

Nature Genetics, Journal Year: 2020, Volume and Issue: 52(12), P. 1423 - 1432

Published: Nov. 2, 2020

Abstract Domestication of the apple was mainly driven by interspecific hybridization. In present study, we report haplotype-resolved genomes cultivated ( Malus domestica cv. Gala) and its two major wild progenitors, M. sieversii sylvestris . Substantial variations are identified between haplotypes each genome. Inference genome ancestry identifies ~23% Gala as hybrid origin. Deep sequencing 91 accessions selective sweeps in apples that originated from either progenitors associated with important domestication traits. Construction analyses pan-genomes uncover thousands new genes, hundreds them being selected one largely fixed apples, revealing introgression genes/alleles is a hallmark through Finally, transcriptome profiles fruits at 13 developmental stages unravel ~19% genes displaying allele-specific expression, including many fruit quality.

Language: Английский

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Demography and its effects on genomic variation in crop domestication

Nature Plants, Journal Year: 2018, Volume and Issue: 4(8), P. 512 - 520

Published: July 25, 2018

Language: Английский

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The interplay of demography and selection during maize domestication and expansion

Genome biology, Journal Year: 2017, Volume and Issue: 18(1)

Published: Nov. 13, 2017

The history of maize has been characterized by major demographic events, including population size changes associated with domestication and range expansion, gene flow wild relatives. interplay between selection shaped diversity across populations genomes.We investigate these processes using high-depth resequencing data from 31 landraces spanning the pre-Columbian distribution maize, four teosinte individuals (Zea mays ssp. parviglumis). Genome-wide analyses reveal that experienced pronounced declines in effective due to both a protracted bottleneck serial founder effects during post-domestication spread, while parviglumis Balsas River Valley growth. subsequent spread led an increase deleterious alleles domesticate compared progenitor. This cost is particularly Andean which more dramatic event other populations. Additionally, we detect introgression Zea mexicana into highlands Mexico, Guatemala, southwestern USA, reduces prevalence likely higher long-term teosinte.These findings underscore strong interaction historical demography efficiency illustrate how domesticated species are useful for understanding processes. landscape therefore evolutionary potential clearly influenced recent demography, factor could bear importantly on many have shifts.

Language: Английский

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Whole-genome resequencing of 472 Vitis accessions for grapevine diversity and demographic history analyses

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

Published: March 13, 2019

Abstract Understanding the Vitis species at genomic level is important for cultivar improvement of grapevine. Here we report whole-genome genetic variation single-base resolution 472 accessions, which cover 48 out 60 extant from a wide geographic distribution. The helps to identify recent dramatic expansion and contraction effective population size in domesticated grapevines that cultivars pan-Black Sea region have unique demographic history comparison other cultivars. We also find selective sweeps berry edibility stress resistance improvement. Furthermore, associations between candidate genes agronomic traits, such as shape aromatic compounds. These results demonstrate resource value resequencing data illuminating evolutionary biology providing targets grapevine

Language: Английский

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Genome assembly of wild tea tree DASZ reveals pedigree and selection history of tea varieties

Nature Communications, Journal Year: 2020, Volume and Issue: 11(1)

Published: July 24, 2020

Abstract Wild teas are valuable genetic resources for studying domestication and breeding. Here we report the assembly of a high-quality chromosome-scale reference genome an ancient tea tree. The further RNA sequencing 217 diverse accessions clarifies pedigree cultivars reveals key contributors in breeding Chinese tea. Candidate genes associated with flavonoid biosynthesis identified by genome-wide association study. Specifically, allelic function CsANR , CsF3’5’H CsMYB5 is verified transient overexpression enzymatic assays, providing comprehensive insights into catechins, most important bioactive compounds plants. inconspicuous differentiation between trees at both metabolic levels implies that may not have undergone long-term artificial directional selection terms flavor-related metabolites. These genomic provide evolutionary insight plants lay foundation better understanding beneficial natural compounds.

Language: Английский

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On the origins and domestication of the olive: a review and perspectives

Annals of Botany, Journal Year: 2017, Volume and Issue: 121(3), P. 385 - 403

Published: Jan. 30, 2017

Unravelling domestication processes is crucial for understanding how species respond to anthropogenic pressures, forecasting crop responses future global changes and improving breeding programmes. Domestication clonally propagated perennials differ markedly from those seed-propagated annual crops, mostly due long generation times, clonal propagation recurrent admixture with local forms, leading a limited number of generations selection wild ancestors. However, additional case studies are required document this process more fully. The olive an iconic in Mediterranean cultural history. Its multiple uses omnipresence traditional agrosystems have made economic pillar cornerstone agriculture. major questions about the history remain unanswered. New paleobotanical, archeological, historical molecular data recently accumulated olive, making it timely carry out critical re-evaluation biogeography olives their cultivation. We review here chronological discuss that unanswered, or even unasked, Basin. argue detailed ecological genomics cultivated improve our domestication. Multidisciplinary research integrating genomics, metagenomics community ecology will make possible decipher evolutionary one most domesticated fruit trees worldwide. relevant model knowledge perennial particularly Future on genomic shifts linked its associated provide insight into phenotypic bases adaptation human uses.

Language: Английский

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Current Strategies of Polyploid Plant Genome Sequence Assembly

Frontiers in Plant Science, Journal Year: 2018, Volume and Issue: 9

Published: Nov. 21, 2018

Polyploidy or duplication of an entire genome occurs in the majority angiosperms. The understanding polyploid genomes is important for improvement those crops, which humans rely on sustenance and basic nutrition. As climate change continues to pose a potential threat agricultural production, there will increasingly be demand plant cultivars that can resist biotic abiotic stresses also provide needed improved In past decade, Next Generation Sequencing (NGS) has fundamentally changed genomics landscape by providing tools exploration genomes. Here, we review challenges assembly genomes, present recent advances genomic resources functional molecular genetics breeding. diploid less heterozygous progenitor species are available, discuss lack complexity these currently available reference as they relate crops. Finally, approaches haplotyping phasing impact third generation technologies assembly.

Language: Английский

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