Demographic history and genetic differentiation of an endemic and endangered Ulmus lamellosa (Ulmus).
Aat
Demographic history
Genetic differentiation
ITS
Ulmus lamellosa
Journal
BMC plant biology
ISSN: 1471-2229
Titre abrégé: BMC Plant Biol
Pays: England
ID NLM: 100967807
Informations de publication
Date de publication:
17 Nov 2020
17 Nov 2020
Historique:
received:
29
02
2020
accepted:
26
10
2020
entrez:
18
11
2020
pubmed:
19
11
2020
medline:
13
4
2021
Statut:
epublish
Résumé
Ulmus lamellosa (one of the ancient species of Ulmus) is an endemic and endangered plant that has undergone climatic oscillations and geographical changes. The elucidation of its demographic history and genetic differentiation is critical for understanding the evolutionary process and ecological adaption to forests in Northern China. Polymorphic haplotypes were detected in most populations of U. lamellosa via DNA sequencing. All haplotypes were divided into three phylogeographic clades fundamentally corresponding to their geographical distribution, namely THM (Taihang Mountains), YM (Yinshan Mountains), and YSM (Yanshan Mountains) groups. The YSM group, which is regarded as ancestral, possessed higher genetic diversity and significant genetic variability in contrast to the YSM and YM groups. Meanwhile, the divergence time of intraspecies haplotypes occurred during the Miocene-Pliocene, which was associated with major Tertiary geological and/or climatic events. Different degrees of gene exchanges were identified between the three groups. During glaciation, the YSM and THM regions might have served as refugia for U. lamellosa. Based on ITS data, range expansion was not expected through evolutionary processes, except for the THM group. A series of mountain uplifts (e.g., Yanshan Mountains and Taihang Mountains) following the Miocene-Pliocene, and subsequently quaternary climatic oscillations in Northern China, further promoted divergence between U. lamellosa populations. Geographical topology and climate change in Northern China played a critical role in establishing the current phylogeographic structural patterns of U. lamellosa. These results provide important data and clues that facilitate the demographic study of tree species in Northern China.
Sections du résumé
BACKGROUND
BACKGROUND
Ulmus lamellosa (one of the ancient species of Ulmus) is an endemic and endangered plant that has undergone climatic oscillations and geographical changes. The elucidation of its demographic history and genetic differentiation is critical for understanding the evolutionary process and ecological adaption to forests in Northern China.
RESULTS
RESULTS
Polymorphic haplotypes were detected in most populations of U. lamellosa via DNA sequencing. All haplotypes were divided into three phylogeographic clades fundamentally corresponding to their geographical distribution, namely THM (Taihang Mountains), YM (Yinshan Mountains), and YSM (Yanshan Mountains) groups. The YSM group, which is regarded as ancestral, possessed higher genetic diversity and significant genetic variability in contrast to the YSM and YM groups. Meanwhile, the divergence time of intraspecies haplotypes occurred during the Miocene-Pliocene, which was associated with major Tertiary geological and/or climatic events. Different degrees of gene exchanges were identified between the three groups. During glaciation, the YSM and THM regions might have served as refugia for U. lamellosa. Based on ITS data, range expansion was not expected through evolutionary processes, except for the THM group. A series of mountain uplifts (e.g., Yanshan Mountains and Taihang Mountains) following the Miocene-Pliocene, and subsequently quaternary climatic oscillations in Northern China, further promoted divergence between U. lamellosa populations.
CONCLUSIONS
CONCLUSIONS
Geographical topology and climate change in Northern China played a critical role in establishing the current phylogeographic structural patterns of U. lamellosa. These results provide important data and clues that facilitate the demographic study of tree species in Northern China.
Identifiants
pubmed: 33203402
doi: 10.1186/s12870-020-02723-7
pii: 10.1186/s12870-020-02723-7
pmc: PMC7672979
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
526Références
Nature. 2000 Jun 22;405(6789):907-13
pubmed: 10879524
Mol Ecol. 1997 Feb;6(2):113-8
pubmed: 9061938
Front Plant Sci. 2016 Nov 11;7:1688
pubmed: 27891142
Bioinformatics. 2003 Dec 12;19(18):2496-7
pubmed: 14668244
Mol Phylogenet Evol. 2011 Apr;59(1):225-44
pubmed: 21292014
Mol Ecol. 2010 Dec;19(24):5345-58
pubmed: 20964755
PLoS One. 2019 Feb 7;14(2):e0211696
pubmed: 30730930
Bioinformatics. 2012 Oct 1;28(19):2537-9
pubmed: 22820204
Mol Biol Evol. 2017 Dec 1;34(12):3299-3302
pubmed: 29029172
Front Plant Sci. 2019 Feb 25;10:199
pubmed: 30858859
Mol Phylogenet Evol. 2009 May;51(2):281-93
pubmed: 19405195
Mol Biol Evol. 1999 Jan;16(1):37-48
pubmed: 10331250
Genetics. 1997 Oct;147(2):915-25
pubmed: 9335623
Bioinformatics. 2007 Nov 1;23(21):2947-8
pubmed: 17846036
Bioinformatics. 2009 Jun 1;25(11):1451-2
pubmed: 19346325
Nat Methods. 2012 Jul 30;9(8):772
pubmed: 22847109
Syst Biol. 2018 Sep 1;67(5):901-904
pubmed: 29718447
Am Nat. 2005 Nov;166(5):581-91
pubmed: 16224723
Bioinformatics. 2008 Dec 1;24(23):2713-9
pubmed: 18842597
Hum Biol. 1994 Aug;66(4):591-600
pubmed: 8088750
Mol Ecol. 2005 Jul;14(8):2611-20
pubmed: 15969739
Evolution. 2013 Dec;67(12):3403-11
pubmed: 24299396
Front Plant Sci. 2019 Mar 05;10:149
pubmed: 30891047
Front Genet. 2018 Nov 26;9:564
pubmed: 30534138
Proc Biol Sci. 2010 Mar 7;277(1682):661-71
pubmed: 19864280
BMC Evol Biol. 2018 May 25;18(1):75
pubmed: 29801429
Sci Rep. 2016 Feb 29;6:21932
pubmed: 26923804
PLoS One. 2011;6(10):e26530
pubmed: 22028897
Mol Biol Evol. 2008 Jul;25(7):1253-6
pubmed: 18397919
Proc Natl Acad Sci U S A. 2016 Oct 18;113(42):11895-11900
pubmed: 27698127
Ecol Evol. 2016 Dec 18;7(1):240-252
pubmed: 28070287
Front Plant Sci. 2018 Oct 25;9:1534
pubmed: 30410498
Mol Phylogenet Evol. 2007 Mar;42(3):817-26
pubmed: 17011794
Mol Ecol. 2005 Mar;14(3):689-701
pubmed: 15723661
Proc Natl Acad Sci U S A. 2001 Apr 10;98(8):4563-8
pubmed: 11287657
Mol Biol Evol. 2012 Aug;29(8):1969-73
pubmed: 22367748
Genetics. 1996 Nov;144(3):1237-45
pubmed: 8913764
BMC Bioinformatics. 2010 Jul 28;11:401
pubmed: 20667077
Genetics. 2010 May;185(1):313-26
pubmed: 20176979
Science. 2008 Aug 22;321(5892):1054-8
pubmed: 18719275
BMC Evol Biol. 2016 Mar 22;16:66
pubmed: 27001058
PLoS Comput Biol. 2014 Apr 10;10(4):e1003537
pubmed: 24722319
Evol Bioinform Online. 2007 Feb 23;1:47-50
pubmed: 19325852
BMC Evol Biol. 2007 Nov 08;7:214
pubmed: 17996036
Science. 2001 Apr 27;292(5517):686-93
pubmed: 11326091
BMC Evol Biol. 2018 Feb 9;18(1):20
pubmed: 29426277
Biol Rev Camb Philos Soc. 2015 Feb;90(1):236-53
pubmed: 24784793
Mol Biol Evol. 1992 May;9(3):552-69
pubmed: 1316531
Genetics. 2002 Dec;162(4):2025-35
pubmed: 12524368
Mol Ecol Resour. 2010 May;10(3):564-7
pubmed: 21565059
Mol Genet Genomics. 2001 Aug;265(6):1097-103
pubmed: 11523782
Front Genet. 2018 May 17;9:171
pubmed: 29868119
PLoS One. 2018 Jan 12;13(1):e0189034
pubmed: 29329302
Mol Ecol. 2010 Jul;19(13):2609-25
pubmed: 20561199
Trends Ecol Evol. 2010 Jul;25(7):410-8
pubmed: 20488578
Bioinformatics. 2006 Feb 1;22(3):341-5
pubmed: 16317072
Genetics. 1989 Nov;123(3):597-601
pubmed: 2599369
PLoS One. 2014 Feb 12;9(2):e88996
pubmed: 24533164
PLoS One. 2018 Jul 3;13(7):e0199780
pubmed: 29969490
Heredity (Edinb). 2014 Feb;112(2):156-64
pubmed: 24065180
Genetics. 1992 Jun;131(2):479-91
pubmed: 1644282
Evolution. 1995 Aug;49(4):608-615
pubmed: 28565146
PeerJ. 2018 May 11;6:e4748
pubmed: 29770273
Sci Rep. 2016 May 03;6:24041
pubmed: 27137438
BMC Evol Biol. 2019 Jan 8;19(1):5
pubmed: 30621591
Bioinformatics. 2014 Apr 15;30(8):1187-1189
pubmed: 24389659
Genetics. 2000 Jun;155(2):945-59
pubmed: 10835412
PLoS One. 2016 Jul 21;11(7):e0159790
pubmed: 27442136
Mol Ecol. 2012 Aug;21(15):3823-38
pubmed: 22646502
Syst Biol. 2000 Jun;49(2):369-81
pubmed: 12118412
Mol Ecol Notes. 2007 Jul 1;7(4):574-578
pubmed: 18784791
Mol Ecol. 2009 Jan;18(1):54-63
pubmed: 19140964
Sci Rep. 2019 Feb 26;9(1):2752
pubmed: 30808955
Mol Phylogenet Evol. 2010 Sep;56(3):972-82
pubmed: 20472080
Science. 2001 Sep 21;293(5538):2242-5
pubmed: 11567135
Mol Phylogenet Evol. 2014 Dec;81:37-48
pubmed: 25196588