دورية أكاديمية
Genomic and phenotypic signatures provide insights into the wide adaptation of a global plant invader.
العنوان: | Genomic and phenotypic signatures provide insights into the wide adaptation of a global plant invader. |
---|---|
المؤلفون: | Hao Y; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China., Wang XF; State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China., Guo Y; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China., Li TY; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China., Yang J; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China., Ainouche ML; UMR CNRS 6553, Université of Rennes, Campus de Beaulieu, 35042 Rennes Cedex Paris, France., Salmon A; UMR CNRS 6553, Université of Rennes, Campus de Beaulieu, 35042 Rennes Cedex Paris, France., Ju RT; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China., Wu JH; State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, China. Electronic address: wjh@lzu.edu.cn., Li LF; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China; State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China. Electronic address: lilinfeng@fudan.edu.cn., Li B; National Observations and Research Station for Wetland Ecosystems of the Yangtze Estuary and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Institute of Biodiversity Science and Institute of Eco-Chongming, School of Life Sciences, Fudan University, Shanghai 200438, China; Ministry of Education Key Laboratory for Transboundary Ecosecurity of Southwest China, Yunnan Key Laboratory of Plant Reproductive Adaptation and Evolutionary Ecology and Centre for Invasion Biology, Institute of Biodiversity, School of Ecology and Environmental Science, Yunnan University, Kunming, Yunnan 650504, China. Electronic address: Bool@ynu.edu.cn. |
المصدر: | Plant communications [Plant Commun] 2024 Apr 08; Vol. 5 (4), pp. 100820. Date of Electronic Publication: 2024 Jan 13. |
نوع المنشور: | Journal Article |
اللغة: | English |
بيانات الدورية: | Publisher: Published by the Plant Communications Shanghai Office in association with Cell Press, an imprint of Elsevier Inc Country of Publication: China NLM ID: 101769147 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2590-3462 (Electronic) Linking ISSN: 25903462 NLM ISO Abbreviation: Plant Commun Subsets: MEDLINE |
أسماء مطبوعة: | Original Publication: [Shanghai] : Published by the Plant Communications Shanghai Office in association with Cell Press, an imprint of Elsevier Inc., [2020]- |
مواضيع طبية MeSH: | Ecosystem* , Plants*, Poaceae/genetics ; Genomics ; Introduced Species |
مستخلص: | Invasive alien species are primary drivers of biodiversity loss and species extinction. Smooth cordgrass (Spartina alterniflora) is one of the most aggressive invasive plants in coastal ecosystems around the world. However, the genomic bases and evolutionary mechanisms underlying its invasion success have remained largely unknown. Here, we assembled a chromosome-level reference genome and performed phenotypic and population genomic analyses between native US and introduced Chinese populations. Our phenotypic comparisons showed that introduced Chinese populations have evolved competitive traits, such as early flowering time and greater plant biomass, during secondary introductions along China's coast. Population genomic and transcriptomic inferences revealed distinct evolutionary trajectories of low- and high-latitude Chinese populations. In particular, genetic mixture among different source populations, together with independent natural selection acting on distinct target genes, may have resulted in high genome dynamics of the introduced Chinese populations. Our study provides novel phenotypic and genomic evidence showing how smooth cordgrass rapidly adapts to variable environmental conditions in its introduced ranges. Moreover, candidate genes related to flowering time, fast growth, and stress tolerance (i.e., salinity and submergence) provide valuable genetic resources for future improvement of cereal crops. (Copyright © 2024 The Author(s). Published by Elsevier Inc. All rights reserved.) |
References: | Genome Biol. 2004;5(2):R7. (PMID: 14759257) Innovation (Camb). 2021 Jul 01;2(3):100141. (PMID: 34557778) Nucleic Acids Res. 2004 Jan 1;32(Database issue):D258-61. (PMID: 14681407) Annu Rev Plant Biol. 2009;60:561-88. (PMID: 19575590) Bioinformatics. 2007 May 1;23(9):1061-7. (PMID: 17332020) New Phytol. 2022 Apr;234(2):392-404. (PMID: 35020198) Bioinformatics. 2021 Apr 1;36(22-23):5516-5518. (PMID: 33325502) Bioinformatics. 2012 Oct 15;28(20):2685-6. (PMID: 22923298) Trends Ecol Evol. 2004 Sep;19(9):470-4. (PMID: 16701309) Curr Protoc Bioinformatics. 2004 May;Chapter 4:Unit 4.10. (PMID: 18428725) Am Nat. 2021 Nov;198(5):E152-E169. (PMID: 34648398) Ecology. 2021 May;102(5):e03311. (PMID: 33586146) Nucleic Acids Res. 2016 May 19;44(9):e89. (PMID: 26893356) Proc Natl Acad Sci U S A. 2004 Sep 21;101(38):13804-7. (PMID: 15317944) Nat Commun. 2022 Apr 13;13(1):1987. (PMID: 35418567) Mol Biol Evol. 2013 Sep;30(9):2224-34. (PMID: 23777627) Trends Ecol Evol. 2005 May;20(5):223-8. (PMID: 16701373) Trends Ecol Evol. 2007 Sep;22(9):465-71. (PMID: 17640765) Nucleic Acids Res. 2012 Jan;40(Database issue):D565-70. (PMID: 22123736) Nucleic Acids Res. 2011 Jan;39(Database issue):D225-9. (PMID: 21109532) Genome Res. 2010 Sep;20(9):1297-303. (PMID: 20644199) Genome Biol. 2014;15(12):550. (PMID: 25516281) Nucleic Acids Res. 1997 Mar 1;25(5):955-64. (PMID: 9023104) Am J Bot. 2008 Jun;95(6):713-9. (PMID: 21632397) Am J Bot. 1999 Jan;86(1):131-9. (PMID: 21680353) Mol Ecol. 2019 Sep;28(17):4012-4027. (PMID: 31339595) Bioinformatics. 2005 Jun;21 Suppl 1:i351-8. (PMID: 15961478) BMC Bioinformatics. 2018 May 30;19(1):189. (PMID: 29843602) New Phytol. 2015 Dec;208(4):1056-66. (PMID: 26147403) Bioinformatics. 2003 Oct;19 Suppl 2:ii215-25. (PMID: 14534192) Bioinformatics. 2015 Oct 1;31(19):3210-2. (PMID: 26059717) Science. 2001 Jul 27;293(5530):629-37. (PMID: 11474098) Nature. 2021 Aug;596(7873):583-589. (PMID: 34265844) Nucleic Acids Res. 2010 Sep;38(16):e164. (PMID: 20601685) Plant J. 2023 Sep;115(6):1500-1513. (PMID: 37313760) Bioinformatics. 2019 May 15;35(10):1786-1788. (PMID: 30321304) Mol Ecol. 2012 May;21(10):2542-51. (PMID: 22413802) Nat Commun. 2021 Nov 1;12(1):6290. (PMID: 34725328) Nat Biotechnol. 2015 Mar;33(3):290-5. (PMID: 25690850) Mol Ecol. 2015 May;24(9):1927-41. (PMID: 25442107) New Phytol. 2021 Jun;230(5):1731-1745. (PMID: 33586137) Nucleic Acids Res. 2015 Jul 13;43(12):e78. (PMID: 25870408) Nat Ecol Evol. 2022 Sep;6(9):1262-1270. (PMID: 35798839) Ecol Lett. 2022 Oct;25(10):2289-2302. (PMID: 35986512) Ecology. 2012 Jan;93(1):101-10. (PMID: 22486091) Nucleic Acids Res. 2003 Jan 1;31(1):365-70. (PMID: 12520024) Bioinformatics. 2011 Aug 1;27(15):2156-8. (PMID: 21653522) Front Plant Sci. 2019 Nov 20;10:1467. (PMID: 31850008) PLoS Genet. 2012;8(11):e1002967. (PMID: 23166502) Nat Methods. 2021 Feb;18(2):170-175. (PMID: 33526886) Curr Biol. 2019 Oct 7;29(19):R1021-R1035. (PMID: 31593661) Front Genet. 2020 Apr 24;11:284. (PMID: 32391044) Curr Protoc Bioinformatics. 2018 Dec;64(1):e56. (PMID: 30332532) Am J Bot. 2011 Mar;98(3):539-48. (PMID: 21613145) Proc Natl Acad Sci U S A. 2016 Oct 4;113(40):11261-11265. (PMID: 27638204) J Mol Biol. 1997 Apr 25;268(1):78-94. (PMID: 9149143) Am J Hum Genet. 2007 Sep;81(3):559-75. (PMID: 17701901) Conserv Biol. 2014 Oct;28(5):1188-94. (PMID: 24779412) Mol Ecol. 2015 May;24(9):2277-97. (PMID: 25474505) Ecology. 2017 Jun;98(6):1591-1599. (PMID: 28316076) Bioinformatics. 2011 Mar 15;27(6):764-70. (PMID: 21217122) Sci Adv. 2022 Aug 26;8(34):eabo5115. (PMID: 36001672) Oecologia. 1997 Mar;110(1):99-108. (PMID: 28307474) Nat Biotechnol. 2013 Dec;31(12):1119-25. (PMID: 24185095) Genome Res. 2009 Sep;19(9):1655-64. (PMID: 19648217) Nucleic Acids Res. 2007 Jul;35(Web Server issue):W265-8. (PMID: 17485477) Genome Biol. 2008 Jan 11;9(1):R7. (PMID: 18190707) Nucleic Acids Res. 2000 Jan 1;28(1):27-30. (PMID: 10592173) Proc Biol Sci. 2006 Jun 7;273(1592):1385-9. (PMID: 16777727) Genetics. 2020 May;215(1):1-13. (PMID: 32371438) Bioinformatics. 2009 Aug 15;25(16):2078-9. (PMID: 19505943) Nature. 2015 Sep 3;525(7567):100-3. (PMID: 26287466) Nucleic Acids Res. 2005 Jan 1;33(Database issue):D121-4. (PMID: 15608160) Trends Ecol Evol. 2004 Aug;19(8):417-22. (PMID: 16701299) Nucleic Acids Res. 1980 Oct 10;8(19):4321-5. (PMID: 7433111) Bioinformatics. 2004 Nov 1;20(16):2878-9. (PMID: 15145805) J Mol Biol. 1990 Oct 5;215(3):403-10. (PMID: 2231712) Phytochem Rev. 2011 Mar;10(1):99-106. (PMID: 21475397) New Phytol. 2021 May;230(3):943-956. (PMID: 33341945) Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):2775-80. (PMID: 23388640) BMC Bioinformatics. 2004 May 14;5:59. (PMID: 15144565) New Phytol. 2020 Apr;226(2):623-634. (PMID: 31834631) |
فهرسة مساهمة: | Keywords: Spartina alterniflora; adaptation; invasive species; natural selection; population genomics |
تواريخ الأحداث: | Date Created: 20240115 Date Completed: 20240411 Latest Revision: 20240425 |
رمز التحديث: | 20240425 |
مُعرف محوري في PubMed: | PMC11009367 |
DOI: | 10.1016/j.xplc.2024.100820 |
PMID: | 38221758 |
قاعدة البيانات: | MEDLINE |
تدمد: | 2590-3462 |
---|---|
DOI: | 10.1016/j.xplc.2024.100820 |