Genomic Resequencing Unravels the Genetic Basis of Domestication, Expansion, and Trait Improvement in Morus Atropurpurea.

Morus / genetics Domestication Genomics Phenotype Fruit / chemistry
domestication evolutionary history flowering time genome mulberry

Journal

Advanced science (Weinheim, Baden-Wurttemberg, Germany)
ISSN: 2198-3844
Titre abrégé: Adv Sci (Weinh)
Pays: Germany
ID NLM: 101664569

Informations de publication

Date de publication:
08 2023
Historique:
revised: 28 05 2023
received: 03 01 2023
medline: 29 8 2023
pubmed: 21 6 2023
entrez: 20 6 2023
Statut: ppublish

Résumé

Mulberry is an economically important plant in the sericulture industry and traditional medicine. However, the genetic and evolutionary history of mulberry remains largely unknown. Here, this work presents the chromosome-level genome assembly of Morus atropurpurea (M. atropurpurea), originating from south China. Population genomic analysis using 425 mulberry accessions reveal that cultivated mulberry is classified into two species, M. atropurpurea and M. alba, which may have originated from two different mulberry progenitors and have independent and parallel domestication in north and south China, respectively. Extensive gene flow is revealed between different mulberry populations, contributing to genetic diversity in modern hybrid cultivars. This work also identifies the genetic architecture of the flowering time and leaf size. In addition, the genomic structure and evolution of sex-determining regions are identified. This study significantly advances the understanding of the genetic basis and domestication history of mulberry in the north and south, and provides valuable molecular markers of desirable traits for mulberry breeding.

Identifiants

DOI: 10.1002/advs.202300039 PMID: 37339798 PMC: PMC10460887
pubmed: 37339798
doi: 10.1002/advs.202300039
pmc: PMC10460887
doi:

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

e2300039

Subventions

Organisme : Key R&D Program of Guangdong, China
ID : 2022B0202110003
Organisme : Natural Science Foundation of Guangdong Province
ID : 2021A1515012444
Organisme : Natural Science Foundation of Guangdong Province
ID : 2019A1515011433
Organisme : China Agriculture Research System of MOF and MARA
Organisme : Science Technology and Innovation Commission of Shenzhen Municipality of China
ID : 20200811142605017
Organisme : Forestry Peak Discipline Construction Project of Fujian Agriculture and Forestry University
ID : 72202200205

Informations de copyright

© 2023 The Authors. Advanced Science published by Wiley-VCH GmbH.

Références

Plant J. 2015 Jun;82(5):758-71
pubmed: 25846941
Nat Commun. 2018 Sep 28;9(1):3969
pubmed: 30266991
Curr Biol. 2010 Apr 13;20(7):629-35
pubmed: 20303265
Trends Plant Sci. 2008 Dec;13(12):663-70
pubmed: 19004664
Proc Natl Acad Sci U S A. 2017 Oct 31;114(44):11715-11720
pubmed: 29042518
Genome Biol. 2004;5(2):R7
pubmed: 14759257
Nat Commun. 2021 Jun 25;12(1):3956
pubmed: 34172741
Mol Biol Evol. 2011 Aug;28(8):2239-52
pubmed: 21325092
Adv Sci (Weinh). 2023 Aug;10(24):e2300039
pubmed: 37339798
Mol Biol Evol. 2018 Jun 1;35(6):1547-1549
pubmed: 29722887
Bioinformatics. 2009 Jul 15;25(14):1754-60
pubmed: 19451168
Mol Biol Evol. 2007 Jul;24(7):1506-17
pubmed: 17443011
Genome Biol. 2018 Jun 11;19(1):77
pubmed: 29890997
Nat Genet. 2020 Apr;52(4):428-436
pubmed: 32231277
Nucleic Acids Res. 2012 Apr;40(7):e49
pubmed: 22217600
Plant J. 1998 Dec;16(6):735-43
pubmed: 10069079
Nat Rev Genet. 2003 Nov;4(11):865-75
pubmed: 14634634
Trends Genet. 2014 Feb;30(2):57-65
pubmed: 24290193
Cell. 2014 Dec 18;159(7):1665-80
pubmed: 25497547
Mol Biol Evol. 2013 Apr;30(4):772-80
pubmed: 23329690
Mol Ecol. 2005 Jul;14(8):2611-20
pubmed: 15969739
Nucleic Acids Res. 2016 May 19;44(9):e89
pubmed: 26893356
PLoS One. 2014 May 02;9(5):e91929
pubmed: 24786468
Plant Cell Environ. 2022 May;45(5):1442-1456
pubmed: 35040157
J Integr Plant Biol. 2020 Oct;62(10):1574-1593
pubmed: 32068333
PLoS Genet. 2013 May;9(5):e1003477
pubmed: 23671421
Nucleic Acids Res. 2012 Jan;40(Database issue):D565-70
pubmed: 22123736
Nucleic Acids Res. 2011 Jan;39(Database issue):D225-9
pubmed: 21109532
Genome Res. 2010 Sep;20(9):1297-303
pubmed: 20644199
Cytogenet Genome Res. 2005;110(1-4):462-7
pubmed: 16093699
Bioinformatics. 2014 Aug 1;30(15):2114-20
pubmed: 24695404
Nat Genet. 2020 Dec;52(12):1423-1432
pubmed: 33139952
Nucleic Acids Res. 1997 Mar 1;25(5):955-64
pubmed: 9023104
Bioinformatics. 2005 Jun;21 Suppl 1:i351-8
pubmed: 15961478
Genome Res. 2004 May;14(5):988-95
pubmed: 15123596
Bioinformatics. 2007 Oct 1;23(19):2633-5
pubmed: 17586829
Genome Res. 2009 Jan;19(1):143-9
pubmed: 18838612
Mol Biol Evol. 2007 Mar;24(3):875-88
pubmed: 17218640
Mol Ecol. 2023 Mar;32(6):1366-1380
pubmed: 35712997
G3 (Bethesda). 2015 Oct 19;5(12):2759-73
pubmed: 26483011
Genome Res. 2017 May;27(5):737-746
pubmed: 28100585
Nat Genet. 2012 Jun 17;44(7):821-4
pubmed: 22706312
Nat Methods. 2011 Sep 04;8(10):833-5
pubmed: 21892150
Genetics. 2010 Feb;184(2):455-65
pubmed: 19933877
Nat Commun. 2016 Nov 08;7:13246
pubmed: 27824331
Bioinformatics. 2003 Oct;19 Suppl 2:ii215-25
pubmed: 14534192
Experientia. 1970;26(2):214-6
pubmed: 5413807
Bioinformatics. 2015 Oct 1;31(19):3210-2
pubmed: 26059717
Bioinformatics. 2019 Jun 1;35(12):2153-2155
pubmed: 30398564
Nat Biotechnol. 2015 Mar;33(3):290-5
pubmed: 25690850
Nat Commun. 2022 Feb 3;13(1):682
pubmed: 35115520
Nucleic Acids Res. 2015 Jul 13;43(12):e78
pubmed: 25870408
Nat Commun. 2013;4:2445
pubmed: 24048436
Nat Commun. 2021 Dec 13;12(1):7246
pubmed: 34903739
Bioinformatics. 2007 May 1;23(9):1061-7
pubmed: 17332020
Mol Plant. 2020 Jul 6;13(7):1001-1012
pubmed: 32422187
Genome Res. 2017 May;27(5):722-736
pubmed: 28298431
Proc Natl Acad Sci U S A. 2002 Aug 6;99(16):10887-92
pubmed: 12136123
Genetics. 2012 Nov;192(3):1065-93
pubmed: 22960212
BMC Bioinformatics. 2011 Aug 04;12:323
pubmed: 21816040
Genomics Proteomics Bioinformatics. 2022 Dec;20(6):1119-1137
pubmed: 36055564
Bioinformatics. 2020 Apr 1;36(7):2253-2255
pubmed: 31778144
Front Plant Sci. 2017 Jan 17;7:1953
pubmed: 28144243
Mol Ecol Resour. 2021 Feb;21(2):584-595
pubmed: 33012121
Nucleic Acids Res. 2003 Jan 1;31(1):365-70
pubmed: 12520024
BMC Genomics. 2006 Dec 28;7:327
pubmed: 17194304
Plant Physiol. 2006 Oct;142(2):509-25
pubmed: 16920880
Nat Methods. 2012 Mar 04;9(4):357-9
pubmed: 22388286
Fly (Austin). 2012 Apr-Jun;6(2):80-92
pubmed: 22728672
Nat Genet. 2014 Aug;46(8):919-25
pubmed: 24952747
Genome Biol. 2019 Nov 14;20(1):238
pubmed: 31727128
Nat Commun. 2020 Nov 18;11(1):5893
pubmed: 33208755
Science. 2009 Aug 7;325(5941):710-4
pubmed: 19661421
Nat Methods. 2021 Feb;18(2):170-175
pubmed: 33526886
Nat Genet. 2017 Feb;49(2):303-309
pubmed: 28024154
Gigascience. 2020 Sep 1;9(9):
pubmed: 32893860
Mol Biotechnol. 2019 Jan;61(1):20-31
pubmed: 30448907
Nat Methods. 2015 Jan;12(1):59-60
pubmed: 25402007
J Mol Biol. 1997 Apr 25;268(1):78-94
pubmed: 9149143
BMC Evol Biol. 2017 Aug 22;17(1):201
pubmed: 28830337
Am J Hum Genet. 2007 Sep;81(3):559-75
pubmed: 17701901
Mol Biol Evol. 2020 Apr 1;37(4):1118-1132
pubmed: 31912142
Theor Appl Genet. 2004 May;108(8):1449-57
pubmed: 14968308
Ann Bot. 2007 Nov;100(5):975-89
pubmed: 17766842
Nat Methods. 2015 Apr;12(4):357-60
pubmed: 25751142
Cell. 2021 Mar 4;184(5):1156-1170.e14
pubmed: 33539781
Nucleic Acids Res. 2016 Jul 8;44(12):e113
pubmed: 27131372
New Phytol. 2015 Jan;205(2):666-81
pubmed: 25307149
Nat Genet. 2006 Aug;38(8):904-9
pubmed: 16862161
Proc Natl Acad Sci U S A. 2011 Jan 18;108(3):1088-92
pubmed: 21189301
PLoS One. 2014 Nov 19;9(11):e112963
pubmed: 25409509
Cell. 2020 Nov 12;183(4):875-889.e17
pubmed: 33035453
Science. 2007 Jun 29;316(5833):1862-6
pubmed: 17600208
Nat Biotechnol. 2013 Dec;31(12):1119-25
pubmed: 24185095
Nucleic Acids Res. 2015 Dec 2;43(21):e140
pubmed: 26184878
Genome Res. 2009 Sep;19(9):1655-64
pubmed: 19648217
Nucleic Acids Res. 2007 Jul;35(Web Server issue):W265-8
pubmed: 17485477
Genome Biol. 2008 Jan 11;9(1):R7
pubmed: 18190707
New Phytol. 2017 Apr;214(2):539-553
pubmed: 28134435
Cell. 2020 Jul 9;182(1):162-176.e13
pubmed: 32553274
Nucleic Acids Res. 2000 Jan 1;28(1):27-30
pubmed: 10592173
Mol Biol Evol. 2013 Aug;30(8):1987-97
pubmed: 23709260
Nat Genet. 2010 Apr;42(4):355-60
pubmed: 20208535
Nat Methods. 2017 Jun;14(6):587-589
pubmed: 28481363
Nat Commun. 2017 Aug 15;8(1):249
pubmed: 28811498
Genome Biol. 2015 Dec 01;16:259
pubmed: 26619908
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D140-4
pubmed: 16381832
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D121-4
pubmed: 15608160
Plant Physiol. 2013 Feb;161(2):904-17
pubmed: 23188807
Bioinformatics. 2004 Nov 1;20(16):2878-9
pubmed: 15145805
Cell. 2006 Dec 29;127(7):1309-21
pubmed: 17190597
Nat Commun. 2018 Dec 20;9(1):5404
pubmed: 30573726
Bioinformatics. 2013 Nov 15;29(22):2933-5
pubmed: 24008419
Nat Genet. 2021 May;53(5):752-760
pubmed: 33846635
Mol Plant. 2019 May 6;12(5):661-677
pubmed: 30822525
BMC Bioinformatics. 2004 May 14;5:59
pubmed: 15144565

Auteurs

Fanwei Dai (F)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.
Key Laboratory of Urban Agriculture in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510610, P. R. China.

Xiaokang Zhuo (X)

College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou, 350002, P. R. China.
National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083, P. R. China.

Guoqing Luo (G)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.
Key Laboratory of Urban Agriculture in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510610, P. R. China.

Zhenjiang Wang (Z)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.
Key Laboratory of Urban Agriculture in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510610, P. R. China.

Yujuan Xu (Y)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Dan Wang (D)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Jianwu Zhong (J)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Sen Lin (S)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Lian Chen (L)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Zhiyi Li (Z)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Yuan Wang (Y)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.

Diyang Zhang (D)

Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou, 350002, P. R. China.

Yuanyuan Li (Y)

Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou, 350002, P. R. China.

Qinyao Zheng (Q)

Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou, 350002, P. R. China.

Tangchun Zheng (T)

National Engineering Research Center for Floriculture, Beijing Forestry University, Beijing, 100083, P. R. China.

Zhong-Jian Liu (ZJ)

Key Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, Fuzhou, 350002, P. R. China.
ORCID: 0000-0003-4390-3878

Li Wang (L)

Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, P. R. China.
Kunpeng Institute of Modern Agriculture at Foshan, Chinese Academy of Agricultural Sciences, Foshan, 528225, P. R. China.

Zhiyong Zhang (Z)

Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing University of Agriculture, Beijing, 102206, P. R. China.

Cuiming Tang (C)

Sericultural & Agri-Food Research Institute Guangdong Academy of Agricultural Sciences/Key Laboratory of Functional Foods, Ministry of Agriculture and Rural Affairs/Guangdong Key Laboratory of Agricultural Products Processing, Guangzhou, 510610, P. R. China.
Key Laboratory of Urban Agriculture in South China, Ministry of Agriculture and Rural Affairs, Guangzhou, 510610, P. R. China.

Articles similaires

Perceptions of the neighbourhood food environment and food insecurity of families with children during the Covid-19 pandemic.

Irene Carolina Sousa Justiniano, Matheus Santos Cordeiro, Hillary Nascimento Coletro et al.
1.00
Humans COVID-19 Food Insecurity Cross-Sectional Studies Female

Comparative genomic analysis and characterization of novel high-quality draft genomes from the coal metagenome.

Arunmozhi Bharathi Achudhan, Lilly M Saleena
1.00
Coal Metagenome Phylogeny Bacteria Genome, Bacterial

Enhancing strawberry resilience to saline, alkaline, and combined stresses with light spectra: impacts on growth, enzymatic activity, nutrient uptake, and osmotic regulation.

Mohammad Reza Malekzadeh, Hamid Reza Roosta, Hazem M Kalaji
1.00
Fragaria Light Plant Leaves Osmosis Stress, Physiological

Lipid accumulation in adipose tissue-resident iNKT cells contributes to an inflammatory phenotype.

Imogen Morris, Frank Vrieling, Annemieke Bouwman et al.
1.00
Animals Natural Killer T-Cells Mice Adipose Tissue Lipid Metabolism

Classifications MeSH

questionsmedicales.fr › Eucaryotes › Viridiplantae › Streptophyta › Embryophyta › Tracheobionta › Magnoliopsida › Rosanae › Rosales › Moraceae › Morus › Genomic Resequencing Unravels the Genetic...
questionsmedicales.fr › Technologie, industrie et agriculture › Agriculture › Domestication › Genomic Resequencing Unravels the Genetic...
questionsmedicales.fr › Disciplines des sciences naturelles › Disciplines des sciences biologiques › Biologie › Génétique › Génomique › Genomic Resequencing Unravels the Genetic...
questionsmedicales.fr › Phénomènes génétiques › Phénotype › Genomic Resequencing Unravels the Genetic...
questionsmedicales.fr › Aliments et boissons › Aliments › Fruit › Genomic Resequencing Unravels the Genetic...