Genetic consequences of human driven habitat fragmentation on endangered Atacama Desert shrub Balsamocarpon brevifolium Clos.
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| Title: | Main Title: Genetic consequences of human driven habitat fragmentation on endangered Atacama Desert shrub Balsamocarpon brevifolium Clos. |
| Description: | Abstract: 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 (2×250 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 HO=0.611 (STD=0.018) and HE=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, R2=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. |
| Identifier: | 10.1016/j.gloplacha.2019.103059 (DOI) |
| Citation Advice: | Stoll A, Harpke D, Schütte C, Jimenez L, Letelier L, Blattner F, Quandt D. Genetic consequences of human driven habitat fragmentation on endangered Atacama Desert shrub Balsamocarpon brevifolium Clos. Global and Planetary Change 184: 103059 |
Responsible Party
| Creators: | Alexandra Stoll (Author), Doerte Harpke (Author), Claudia Schütte (Author), Lissette Jimenez (Author), Luis Letelier (Author), Frank R Blattner (Author), Dietmar Quandt (Author) |
| Funding References: | Deutsche Forschungsgemeinschaft (DFG): CRC 1211: Earth - Evolution at the Dry Limit Fondo Nacional de Desarrollo Científico y Tecnológico: 1131089: Regular grant |
| Publisher: | Elsevier |
| Publication Year: | 2021 |
Topic
| CRC1211 Topic: | Biology |
| Related Subproject: | B1 |
| Subjects: | Keywords: Biodiversity, Biogeography, Ecology of Plants, Population Genetics |
| Geogr. Information Topic: | Biota |
File Details
| Filename: | 098_Stoll_Balsamo.pdf |
| Data Type: | Text - Article |
| File Size: | 2.4 MB |
| Date: | Available: 25.10.2019 |
| Mime Type: | application/pdf |
| Data Format: | |
| Language: | English |
| Status: | Completed |
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| Download Permission: | Only Project Members |
| General Access and Use Conditions: | According to the CRC1211DB data policy agreement. |
| Access Limitations: | According to the CRC1211DB data policy agreement. |
| Licence: | None |
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Specific Information - Publication
| Publication Status: | Published |
| Review Status: | Peer reviewed |
| Publication Type: | Article |
| Article Type: | Journal |
| Source: | Global and Planetary Change |
| Source Website: | https://doi.org/10.1016/j.gloplacha.2019.103059 |
| Volume: | 184 |
| Number of Pages: | 10 (1 - 10) |
Metadata Details
| Metadata Creator: | Dietmar Quandt |
| Metadata Created: | 27.01.2021 |
| Metadata Last Updated: | 27.01.2021 |
| Subproject: | B1 |
| Funding Phase: | 1 |
| Metadata Language: | English |
| Metadata Version: | V50 |
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| Page Visits: | 322 |
| Metadata Downloads: | 0 |
| Dataset Downloads: | 1 |
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