Please use this identifier to cite or link to this item: https://doi.org/10.5061/dryad.h4j7hv4
Title: Data from: Roads to isolation: similar genomic history patterns in two species of freshwater crabs with contrasting environmental tolerances and range sizes
Creators: Ywee Chieh Tay 
Daniel Jia Jun Ng
Jun Bin Loo
Danwei Huang 
Yixiong Cai 
Darren Chong Jinn Yeo 
Rudolf Meier 
Subject: Island endemic
Population genomics
Molecular ecology
Habitat fragmentation
Depauperate genetic diversity
DOI: 10.5061/dryad.h4j7hv4
Description: Freshwater species often show high levels of endemism and risk of extinction owing to their limited dispersal abilities. This is exemplified by the stenotopic freshwater crab, Johora singaporensis which is one of the world's 100 most threatened species, and currently inhabits less than 0.01 km2 of five low order hill streams within the highly urbanized island city‐state of Singapore. We compared populations of J. singaporensis with that of the non‐threatened, widespread, abundant, and eurytopic freshwater crab, Parathelphusa maculata, and found surprisingly high congruence between their population genomic histories. Based on 2,617 and 2,470 genome‐wide SNPs mined via the double‐digest restriction‐associated DNA sequencing method for ~90 individuals of J. singaporensis and P. maculata, respectively, the populations are strongly isolated (FST = 0.146–0.371), have low genetic diversity for both species (also for COI), and show signatures of recent genetic bottlenecks. The most genetically isolated populations for both species are separated from other populations by one of the oldest roads in Singapore. These results suggest that anthropogenic developments may have impacted stream‐dependent species in a uniform manner, regardless of ubiquity, habitat preference, or dispersal modes of the species. While signs of inbreeding were not detected for the critically endangered species, the genetic distinctiveness and low diversity of the populations call for genetic rescue and connecting corridors between the remaining fragments of the natural habitat.
Related Publications: https://doi.org/10.1002/ece3.4017
Citation: When using this data, please cite the original publication and also the dataset.
  • Tay YC, Ng DJJ, Loo JB, Huang D, Cai Y, Yeo DCJ, Meier R (2018) Roads to isolation: Similar genomic history patterns in two species of freshwater crabs with contrasting environmental tolerances and range sizes. Ecology and Evolution 8(9): 4657-4668. https://doi.org/10.1002/ece3.4017
  • Ywee Chieh Tay, Daniel Jia Jun Ng, Jun Bin Loo, Danwei Huang, Yixiong Cai, Darren Chong Jinn Yeo, Rudolf Meier (2018-09-11). Data from: Roads to isolation: similar genomic history patterns in two species of freshwater crabs with contrasting environmental tolerances and range sizes. ScholarBank@NUS Repository. [Dataset]. https://doi.org/10.5061/dryad.h4j7hv4
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20160308_JSIN_sub1_flt_fastq_js1F.zipDemultiplexed fastq files for each sample - J. singaporensis2.2 GBZIP

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20160308_JSIN_sub1_flt_fastq_js1M.zipDemultiplexed fastq files for each sample - J. singaporensis2.67 GBZIP

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20160308_JSIN_sub1_flt_fastq_js1MIN.zipDemultiplexed fastq files for each sample - J. singaporensis2.12 GBZIP

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20160308_JSIN_sub1_flt_fastq_js1P.zipDemultiplexed fastq files for each sample - J. singaporensis2.05 GBZIP

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20160518_PMAC_flt_fastq_pmDL.zipDemultiplexed fastq files for each sample - P. maculata2.19 GBZIP

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20160518_PMAC_flt_fastq_pmM.zipDemultiplexed fastq files for each sample - P. maculata2.03 GBZIP

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20160518_PMAC_flt_fastq_pmMIN.zipDemultiplexed fastq files for each sample - P. maculata2.09 GBZIP

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20160518_PMAC_flt_fastq_pmP.zipDemultiplexed fastq files for each sample - P. maculata3.61 GBZIP

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README.txtREADME file10.06 kBText

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