A Targeted Capture Linkage Map Anchors the Genome of the Schistosomiasis Vector Snail, Biomphalaria glabrata

G3 : Genes - Genomes - Genetics
Jacob A TennessenMichael S Blouin

Abstract

The aquatic planorbid snail Biomphalaria glabrata is one of the most intensively-studied mollusks due to its role in the transmission of schistosomiasis. Its 916 Mb genome has recently been sequenced and annotated, but it remains poorly assembled. Here, we used targeted capture markers to map over 10,000 B. glabrata scaffolds in a linkage cross of 94 F1 offspring, generating 24 linkage groups (LGs). We added additional scaffolds to these LGs based on linkage disequilibrium (LD) analysis of targeted capture and whole-genome sequences of 96 unrelated snails. Our final linkage map consists of 18,613 scaffolds comprising 515 Mb, representing 56% of the genome and 75% of genic and nonrepetitive regions. There are 18 large (> 10 Mb) LGs, likely representing the expected 18 haploid chromosomes, and > 50% of the genome has been assigned to LGs of at least 17 Mb. Comparisons with other gastropod genomes reveal patterns of synteny and chromosomal rearrangements. Linkage relationships of key immune-relevant genes may help clarify snail-schistosome interactions. By focusing on linkage among genic and nonrepetitive regions, we have generated a useful resource for associating snail phenotypes with causal genes, even in the absence of a compl...Continue Reading

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Citations

Nov 25, 2019·Developmental and Comparative Immunology·Maria G CastilloCesar E Montelongo

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Datasets Mentioned

BETA
PRJNA288880
PRJNA380244

Methods Mentioned

BETA
Illumina sequencing
genotyping

Software Mentioned

BioPerl
Trimmomatic
MYcroarray
SamTools
BWA
BLAST
PopGen
blastn
OneMap
Perlymorphism

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