Please use this identifier to cite or link to this item: http://hdl.handle.net/1893/23391
Appears in Collections:Aquaculture Journal Articles
Peer Review Status: Refereed
Title: A nonlethal sampling method to obtain, generate and assemble whole blood transcriptomes from small, wild mammals
Authors: Huang, Zixia
Gallot, Aurore
Lao, Nga T
Puechmaille, Sebastien J
Foley, Nicole M
Jebb, David
Bekaert, Michaël
Teeling, Emma C
Contact Email: michael.bekaert@stir.ac.uk
Keywords: bats
conservation genomics
de novo assembly
Illumina RNA-Seq
Myotis myotis
Issue Date: Jan-2016
Publisher: Wiley-Blackwell
Citation: Huang Z, Gallot A, Lao NT, Puechmaille SJ, Foley NM, Jebb D, Bekaert M & Teeling EC (2016) A nonlethal sampling method to obtain, generate and assemble whole blood transcriptomes from small, wild mammals, Molecular Ecology Resources, 16 (1), pp. 150-162.
Abstract: The acquisition of tissue samples from wild populations is a constant challenge in conservation biology, especially for endangered species and protected species where nonlethal sampling is the only option. Whole blood has been suggested as a nonlethal sample type that contains a high percentage of bodywide and genomewide transcripts and therefore can be used to assess the transcriptional status of an individual, and to infer a high percentage of the genome. However, only limited quantities of blood can be nonlethally sampled from small species and it is not known if enough genetic material is contained in only a few drops of blood, which represents the upper limit of sample collection for some small species. In this study, we developed a nonlethal sampling method, the laboratory protocols and a bioinformatic pipeline to sequence and assemble the whole blood transcriptome, using Illumina RNA-Seq, from wild greater mouse-eared bats ( Myotis myotis). For optimal results, both ribosomal and globin RNAs must be removed before library construction. Treatment of DNase is recommended but not required enabling the use of smaller amounts of starting RNA. A large proportion of protein-coding genes (61%) in the genome were expressed in the blood transcriptome, comparable to brain (65%), kidney (63%) and liver (58%) transcriptomes, and up to 99% of the mitogenome (excluding D-loop) was recovered in the RNA-Seq data. In conclusion, this nonlethal blood sampling method provides an opportunity for a genomewide transcriptomic study of small, endangered or critically protected species, without sacrificing any individuals.
Type: Journal Article
URI: http://hdl.handle.net/1893/23391
DOI Link: http://dx.doi.org/10.1111/1755-0998.12447
Rights: The publisher does not allow this work to be made publicly available in this Repository. Please use the Request a Copy feature at the foot of the Repository record to request a copy directly from the author. You can only request a copy if you wish to use this work for your own research or private study.
Affiliation: University College Dublin (UCD)
University College Dublin (UCD)
University College Dublin (UCD)
University College Dublin (UCD)
University College Dublin (UCD)
University College Dublin (UCD)
Aquaculture
University College Dublin (UCD)

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