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Characterisation of the complete mitochondrial genome and 13 microsatellite loci through next-generation sequencing for the New Caledonian spider-ant Leptomyrmex pallens

Berman, Maia, Austin, Chris M. and Miller, Adam D. 2014, Characterisation of the complete mitochondrial genome and 13 microsatellite loci through next-generation sequencing for the New Caledonian spider-ant Leptomyrmex pallens, Molecular biology reports, vol. 41, no. 3, pp. 1179-1187, doi: 10.1007/s11033-013-2657-5.

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Title Characterisation of the complete mitochondrial genome and 13 microsatellite loci through next-generation sequencing for the New Caledonian spider-ant Leptomyrmex pallens
Author(s) Berman, Maia
Austin, Chris M.
Miller, Adam D.
Journal name Molecular biology reports
Volume number 41
Issue number 3
Start page 1179
End page 1187
Total pages 9
Publisher Springer
Place of publication Berlin, Germany
Publication date 2014-03
ISSN 1573-4978
Keyword(s) 454-pyrosequencing
mitogenome characterization
microsatellites
formicidae species cross amplification
population genetics
Summary The complete mitochondrial genome and a set of polymorphic microsatellite markers were identified by 454 pyrosequencing (1/16th of a plate) for the New Caledonian rainforest spider-ant Leptomyrmex pallens. De novo genome assembly recovered the entire mitochondrial genome with mean coverage of 8.9-fold (range 1-27). The mitogenome consists of 15,591 base pairs including 13 protein-coding genes, 2 ribosomal subunit genes, 22 transfer RNAs, and a non-coding AT-rich region. The genome arrangement is typical of insect taxa and very similar to the only other published ant mitogenome from the Solenopsis genus, with the main differences consisting of translocations and inversions of tRNAs. A total of 13 polymorphic loci were also characterized using 41 individuals from a single population in the Aoupinié region, corresponding to workers from 21 nests and 16 foraging workers. We observed moderate genetic variation across most loci (mean number of alleles per locus = 4.50; mean expected heterozygosity = 0.53) with evidence of only two loci deviating significantly from Hardy-Weinberg equilibrium due to null alleles. Marker independence was confirmed with tests for linkage disequilibrium. Most loci cross amplified for three additional Leptomyrmex species. The annotation of the mitogenome and characterization of microsatellite markers will provide useful tools for assessing the colony structure, population genetic patterns, and dispersal strategy of L. pallens in the context of rainforest fragmentation in New Caledonia. Furthermore, this paper confirms a recent line of evidence that comprehensive mitochondrial data can be obtained relatively easily from small next-generation sequencing analyses. Greater synthesis of next-generation sequencing data will play a significant role in expanding the taxonomic representation of mitochondrial genome sequences.
Language eng
DOI 10.1007/s11033-013-2657-5
Field of Research 050202 Conservation and Biodiversity
060208 Terrestrial Ecology
060808 Invertebrate Biology
060411 Population, Ecological and Evolutionary Genetics
0601 Biochemistry And Cell Biology
Socio Economic Objective 970106 Expanding Knowledge in the Biological Sciences
HERDC Research category C1.1 Refereed article in a scholarly journal
ERA Research output type C Journal article
Copyright notice ©2014, Springer
Persistent URL http://hdl.handle.net/10536/DRO/DU:30088768

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