دورية أكاديمية
أعرض في EDS

Plastome phylogenomics and phylogenetic diversity of endangered and threatened grassland species (Poaceae) in a North American tallgrass prairie.

التفاصيل البيبلوغرافية
العنوان: Plastome phylogenomics and phylogenetic diversity of endangered and threatened grassland species (Poaceae) in a North American tallgrass prairie.
المؤلفون: Pischl PH; Department of Biological Sciences Northern Illinois University DeKalb Illinois USA., Burke SV; Center for Translational Data Science University of Chicago Chicago Illinois USA., Bach EM; The Nature Conservancy, Nachusa Grasslands Franklin Grove Illinois USA., Duvall MR; Department of Biological Sciences Northern Illinois University DeKalb Illinois USA.
المصدر: Ecology and evolution [Ecol Evol] 2020 Jun 25; Vol. 10 (14), pp. 7602-7615. Date of Electronic Publication: 2020 Jun 25 (Print Publication: 2020).
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Blackwell Pub. Ltd Country of Publication: England NLM ID: 101566408 Publication Model: eCollection Cited Medium: Print ISSN: 2045-7758 (Print) Linking ISSN: 20457758 NLM ISO Abbreviation: Ecol Evol Subsets: PubMed not MEDLINE
أسماء مطبوعة: Original Publication: [Oxford] : Blackwell Pub. Ltd.
مستخلص: Native grasslands are one of the most endangered ecosystems in North America. In this study, we examined the ecological and evolutionary roles of endangered and threatened (e/t) grasses by establishing robust evolutionary relationships with other nonthreatened native and introduced grass species of the community. We hypothesized that the phylogenomic distribution of e/t species of grasses in Illinois would be phylogenetically clustered because closely related species would be vulnerable to the same threats and have similar requirements for survival. This study presents the first time a phylogeny based on complete plastome DNA of Poaceae was analyzed by phylogenetic diversity analysis. To avoid the disturbance of e/t populations, DNA was extracted from herbarium specimens. Next-generation sequencing (NGS) techniques were used to sequence DNA of plastid genomes (plastomes). The resulting phylogenomic tree was analyzed by phylogenetic diversity metrics. The extracted DNA successfully produced complete plastomes demonstrating that herbarium material is a practical source of DNA for genomic studies. The phylogenomic tree was strongly supported and defined Dichanthelium as a separate clade from Panicum . The phylogenetic metrics revealed phylogenetic clustering of e/t species, confirming our hypothesis.
Competing Interests: None declared.
(© 2020 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.)
References: Bioinformatics. 2012 Dec 1;28(23):3150-2. (PMID: 23060610)
Nat Methods. 2012 Jul 30;9(8):772. (PMID: 22847109)
BMC Bioinformatics. 2010 Sep 27;11:485. (PMID: 20875133)
Biodivers Data J. 2015 Jul 17;(3):e5403. (PMID: 26312052)
Front Plant Sci. 2016 Dec 27;7:1993. (PMID: 28083012)
Bioinformatics. 2012 Jun 15;28(12):1647-9. (PMID: 22543367)
Ecol Lett. 2008 Oct;11(10):995-1003. (PMID: 18673385)
Am J Bot. 2012 Feb;99(2):349-64. (PMID: 22174336)
Ann Bot. 2017 Feb;119(3):339-351. (PMID: 28028020)
Ecology. 2012 Feb;93(2):242-7. (PMID: 22624305)
BMC Plant Biol. 2018 Aug 3;18(1):152. (PMID: 30075756)
Mol Biol Evol. 2013 Apr;30(4):772-80. (PMID: 23329690)
Front Plant Sci. 2017 May 09;8:730. (PMID: 28536591)
Bioinformatics. 2010 Jun 1;26(11):1463-4. (PMID: 20395285)
Oecologia. 2012 Nov;170(3):835-45. (PMID: 22569558)
Bioinformatics. 2014 May 1;30(9):1312-3. (PMID: 24451623)
AoB Plants. 2015 May 04;7:. (PMID: 25940204)
J Environ Qual. 2011 Nov-Dec;40(6):1824-34. (PMID: 22031565)
PeerJ. 2018 Feb 2;6:e4299. (PMID: 29416954)
Appl Plant Sci. 2015 Jul 07;3(7):. (PMID: 26191461)
Genome Res. 2008 May;18(5):821-9. (PMID: 18349386)
Am J Bot. 2008 Dec;95(12):1584-95. (PMID: 21628165)
Syst Biol. 2012 May;61(3):539-42. (PMID: 22357727)
J Comput Biol. 2012 May;19(5):455-77. (PMID: 22506599)
BMC Plant Biol. 2016 Jun 18;16(1):140. (PMID: 27316745)
Nucleic Acids Res. 1997 Sep 1;25(17):3389-402. (PMID: 9254694)
Nucleic Acids Res. 2010 Jan;38(Database issue):D492-6. (PMID: 19854944)
Ecol Evol. 2020 Jun 25;10(14):7602-7615. (PMID: 32760551)
J Exp Bot. 2014 Dec;65(22):6711-21. (PMID: 25258360)
Ecol Lett. 2010 Oct;13(10):1310-24. (PMID: 20649638)
Am J Bot. 2012 Dec;99(12):1951-61. (PMID: 23221496)
فهرسة مساهمة: Keywords: Poaceae; chloroplast; endangered species; phylogenetic diversity; phylogenomics; plastid; plastomes
تواريخ الأحداث: Date Created: 20200808 Latest Revision: 20240329
رمز التحديث: 20240329
مُعرف محوري في PubMed: PMC7391303
DOI: 10.1002/ece3.6484
PMID: 32760551
قاعدة البيانات: MEDLINE
الوصف
تدمد:2045-7758
DOI:10.1002/ece3.6484