干旱区生态环境知识资源中心(Arid): Landscape genetics of the endangered Atacama Desert shrub Balsamocarpon brevifolium in the context of habitat fragmentation

Arid

DOI	10.1016/j.gloplacha.2019.103059
	Landscape genetics of the endangered Atacama Desert shrub Balsamocarpon brevifolium in the context of habitat fragmentation
	Stoll, Alexandra 1,2,3; Harpke, Dorte 3,4; Schuette, Claudia 3; Jimenez, Lissette 3; Letelier, Luis 5; Blattner, Frank R.4,6; Quandt, Dietmar 3,4
通讯作者	Stoll, Alexandra ; Quandt, Dietmar
来源期刊	GLOBAL AND PLANETARY CHANGE
ISSN	0921-8181
EISSN	1872-6364
出版年	2020
卷号	184
英文摘要	Balsamocarpon brevifolium CLOS (Fabaceae), an endangered endemic shrub of the Chilean Atacama Desert, nowadays occurs in fragmented populations, which are exploit since at least 200 years. Understanding its genetic diversity, population structure and distribution patterns are essential for conservation planning and sustainable management. Based on Low-coverage shotgun sequencing (2 x 250 bp) of genomic DNA on the Illumina MiSeq platform we developed microsatellite (SSR) markers. In the nuclear genome we identified 6042 loci with potentially useful microsatellite motifs (83.1% di- and 13.1% tri-nucleotide repeats). Only 2% out of the initially tested 135 tri-nucleotide loci provided reliable amplicons. Back mapping of sequence reads to our initial assembly revealed that the high rate of unsuccessful amplifications was caused by erroneously assembled contigs and/or heterozygosity of the loci at the primer binding sites, highlighting the need of additional control steps such as back mapping especially when dealing with low genomic coverage sequencing. Fifteen markers were finally used to characterize the genetic diversity and variation in 18 populations across the species' natural distribution area. We found in total 183 alleles and inferred moderate genetic diversity from values of H-O = 0.611 (STD = 0.018) and H-E = 0.557 (STD = 0.015). Genetic variation was higher within populations (91%) than among them (9%). A low but significant correlation between geographical and genetic distances was detected among populations (Mantel test, R-2 = 0.16; P = 0.01). Even though distribution barriers might exist due to fragmentation, we found moderate gene flow (Nm = 3.58), which might be explained be seed dispersal by native parrots STRUCTURE analysis suggests the existence of three genetic clusters, which are not completely distinct from each other. However, we found that habitat discontinuities in the case of B. brevifolium did not yet noticeably impact gene flow and genetic population structure. Taking into account the genetic structure and Ecological Niche prediction under future climate scenarios, in situ conservation efforts for B. brevifolium should focus on populations in the coastal mountains.
英文关键词	Balsamocarpon brevifolium Microsatellite (SSR) Genetic drift Seed dispersal by parrots
类型	Article
语种	英语
国家	Chile ; Germany
收录类别	SCI-E
WOS记录号	WOS:000508491500029
WOS关键词	POPULATION-STRUCTURE ; CYANOLISEUS-PATAGONUS ; BURROWING PARROT ; DIVERSITY ; CONSEQUENCES ; SOFTWARE ; PATTERNS ; CHARCOAL ; BIOLOGY ; REGION
WOS类目	Geography, Physical ; Geosciences, Multidisciplinary
WOS研究方向	Physical Geography ; Geology
EI主题词	2020-01-01
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/312237
作者单位	1.Univ Serena, CEAZA, La Serena, Chile; 2.Univ Serena, Inst Invest Multidisciplinario Ciencia & Tecnol, La Serena, Chile; 3.Univ Bonn, Nees Inst Biodivers Plants, Bonn, Germany; 4.Leibniz Inst Plant Genet & Crop Plant Res IPK, Gatersleben, Germany; 5.Univ Talca, Inst Ciencias Biol, Talca, Chile; 6.German Ctr Integrat Biodivers Res iDiv, Leipzig, Germany
推荐引用方式 GB/T 7714	Stoll, Alexandra,Harpke, Dorte,Schuette, Claudia,et al. Landscape genetics of the endangered Atacama Desert shrub Balsamocarpon brevifolium in the context of habitat fragmentation[J],2020,184.
APA	Stoll, Alexandra.,Harpke, Dorte.,Schuette, Claudia.,Jimenez, Lissette.,Letelier, Luis.,...&Quandt, Dietmar.(2020).Landscape genetics of the endangered Atacama Desert shrub Balsamocarpon brevifolium in the context of habitat fragmentation.GLOBAL AND PLANETARY CHANGE,184.
MLA	Stoll, Alexandra,et al."Landscape genetics of the endangered Atacama Desert shrub Balsamocarpon brevifolium in the context of habitat fragmentation".GLOBAL AND PLANETARY CHANGE 184(2020).