File Download

There are no files associated with this item.

  Links for fulltext
     (May Require Subscription)
Supplementary

Article: De novo assembly of the transcriptome of an invasive snail and its multiple ecological applications

TitleDe novo assembly of the transcriptome of an invasive snail and its multiple ecological applications
Authors
KeywordsApple Snail
Microsatellite
Pomacea
Proteome
Single-Nucleotide Polymorphism
Transcriptome
Issue Date2012
PublisherWiley-Blackwell Publishing Ltd.. The Journal's web site is located at http://www.blackwellpublishing.com/journal.asp?ref=1755-098X&site=1
Citation
Molecular Ecology Resources, 2012, v. 12 n. 6, p. 1133-1144 How to Cite?
AbstractStudying how invasive species respond to environmental stress at the molecular level can help us assess their impact and predict their range expansion. Development of markers of genetic polymorphism can help us reconstruct their invasive route. However, to conduct such studies requires the presence of substantial amount of genomic resources. This study aimed to generate and characterize genomic resources using high throughput transcriptome sequencing for Pomacea canaliculata, a nonmodel gastropod indigenous to Argentina that has invaded Asia, Hawaii and southern United States. De novo assembly of the transcriptome resulted in 128 436 unigenes with an average length of 419 bp (range: 150-8556 bp). Many of the unigenes (2439) contained transposable elements, showing the existence of a source of genetic variability in response to stressful conditions. A total of 3196 microsatellites were detected in the transcriptome; among 20 of the randomly tested microsatellites, 10 were validated to exhibit polymorphism. A total of 15 412 single-nucleotide polymorphisms (SNPs) were detected in the ORFs. LC-MS/MS analysis of the proteome of juveniles revealed 878 proteins, of which many are stress related. This study has demonstrated the great potential of high throughput DNA sequencing for rapid development of genomic resources for a nonmodel organism. Such resources can facilitate various molecular ecological studies, such as stress physiology and range expansion. © 2012 Blackwell Publishing Ltd.
Persistent Identifierhttp://hdl.handle.net/10722/179325
ISSN
2015 Impact Factor: 5.298
2015 SCImago Journal Rankings: 2.331
ISI Accession Number ID
References

 

DC FieldValueLanguage
dc.contributor.authorSun, Jen_US
dc.contributor.authorWang, Men_US
dc.contributor.authorWang, Hen_US
dc.contributor.authorZhang, Hen_US
dc.contributor.authorZhang, Xen_US
dc.contributor.authorThiyagarajan, Ven_US
dc.contributor.authorQian, PYen_US
dc.contributor.authorQiu, JWen_US
dc.date.accessioned2012-12-19T09:54:12Z-
dc.date.available2012-12-19T09:54:12Z-
dc.date.issued2012en_US
dc.identifier.citationMolecular Ecology Resources, 2012, v. 12 n. 6, p. 1133-1144en_US
dc.identifier.issn1755-098Xen_US
dc.identifier.urihttp://hdl.handle.net/10722/179325-
dc.description.abstractStudying how invasive species respond to environmental stress at the molecular level can help us assess their impact and predict their range expansion. Development of markers of genetic polymorphism can help us reconstruct their invasive route. However, to conduct such studies requires the presence of substantial amount of genomic resources. This study aimed to generate and characterize genomic resources using high throughput transcriptome sequencing for Pomacea canaliculata, a nonmodel gastropod indigenous to Argentina that has invaded Asia, Hawaii and southern United States. De novo assembly of the transcriptome resulted in 128 436 unigenes with an average length of 419 bp (range: 150-8556 bp). Many of the unigenes (2439) contained transposable elements, showing the existence of a source of genetic variability in response to stressful conditions. A total of 3196 microsatellites were detected in the transcriptome; among 20 of the randomly tested microsatellites, 10 were validated to exhibit polymorphism. A total of 15 412 single-nucleotide polymorphisms (SNPs) were detected in the ORFs. LC-MS/MS analysis of the proteome of juveniles revealed 878 proteins, of which many are stress related. This study has demonstrated the great potential of high throughput DNA sequencing for rapid development of genomic resources for a nonmodel organism. Such resources can facilitate various molecular ecological studies, such as stress physiology and range expansion. © 2012 Blackwell Publishing Ltd.en_US
dc.languageengen_US
dc.publisherWiley-Blackwell Publishing Ltd.. The Journal's web site is located at http://www.blackwellpublishing.com/journal.asp?ref=1755-098X&site=1en_US
dc.relation.ispartofMolecular Ecology Resourcesen_US
dc.subjectApple Snailen_US
dc.subjectMicrosatelliteen_US
dc.subjectPomaceaen_US
dc.subjectProteomeen_US
dc.subjectSingle-Nucleotide Polymorphismen_US
dc.subjectTranscriptomeen_US
dc.titleDe novo assembly of the transcriptome of an invasive snail and its multiple ecological applicationsen_US
dc.typeArticleen_US
dc.identifier.emailThiyagarajan, V: rajan@hkucc.hku.hken_US
dc.identifier.authorityThiyagarajan, V=rp00796en_US
dc.description.naturelink_to_subscribed_fulltexten_US
dc.identifier.doi10.1111/1755-0998.12014en_US
dc.identifier.pmid22994926-
dc.identifier.scopuseid_2-s2.0-84867541892en_US
dc.identifier.hkuros223088-
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-84867541892&selection=ref&src=s&origin=recordpageen_US
dc.identifier.volume12en_US
dc.identifier.issue6en_US
dc.identifier.spage1133en_US
dc.identifier.epage1144en_US
dc.identifier.isiWOS:000309739700018-
dc.publisher.placeUnited Kingdomen_US
dc.identifier.scopusauthoridSun, J=55362847500en_US
dc.identifier.scopusauthoridWang, M=55362374500en_US
dc.identifier.scopusauthoridWang, H=53165067000en_US
dc.identifier.scopusauthoridZhang, H=49462031000en_US
dc.identifier.scopusauthoridZhang, X=54986307200en_US
dc.identifier.scopusauthoridThiyagarajan, V=6602476830en_US
dc.identifier.scopusauthoridQian, PY=35240648600en_US
dc.identifier.scopusauthoridQiu, JW=7403309861en_US

Export via OAI-PMH Interface in XML Formats


OR


Export to Other Non-XML Formats