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Article: A crustacean annotated transcriptome (CAT) database

TitleA crustacean annotated transcriptome (CAT) database
Authors
Issue Date2020
PublisherBioMed Central Ltd. The Journal's web site is located at http://www.biomedcentral.com/bmcgenomics/
Citation
BMC Genomics, 2020, v. 21 n. 1, p. article no. 32 How to Cite?
AbstractBackground: Decapods are an order of crustaceans which includes shrimps, crabs, lobsters and crayfish. They occur worldwide and are of great scientific interest as well as being of ecological and economic importance in fisheries and aquaculture. However, our knowledge of their biology mainly comes from the group which is most closely related to crustaceans – insects. Here we produce a de novo transcriptome database, crustacean annotated transcriptome (CAT) database, spanning multiple tissues and the life stages of seven crustaceans. Description: A total of 71 transcriptome assemblies from six decapod species and a stomatopod species, including the coral shrimp Stenopus hispidus, the cherry shrimp Neocaridina davidi, the redclaw crayfish Cherax quadricarinatus, the spiny lobster Panulirus ornatus, the red king crab Paralithodes camtschaticus, the coconut crab Birgus latro, and the zebra mantis shrimp Lysiosquillina maculata, were generated. Differential gene expression analyses within species were generated as a reference and included in a graphical user interface database at http://cat.sls.cuhk.edu.hk/. Users can carry out gene name searches and also access gene sequences based on a sequence query using the BLAST search function. Conclusions: The data generated and deposited in this database offers a valuable resource for the further study of these crustaceans, as well as being of use in aquaculture development.
Persistent Identifierhttp://hdl.handle.net/10722/304838
ISSN
2023 Impact Factor: 3.5
2023 SCImago Journal Rankings: 1.047
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorNong, W-
dc.contributor.authorChai, ZYH-
dc.contributor.authorJiang, X-
dc.contributor.authorQin, J-
dc.contributor.authorMa, KY-
dc.contributor.authorChan, KM-
dc.contributor.authorChan, TF-
dc.contributor.authorChow, BKC-
dc.contributor.authorKwan, HS-
dc.contributor.authorWong, CKC-
dc.contributor.authorQiu, JW-
dc.contributor.authorHui, JHL-
dc.contributor.authorChu, KH-
dc.date.accessioned2021-10-05T02:35:55Z-
dc.date.available2021-10-05T02:35:55Z-
dc.date.issued2020-
dc.identifier.citationBMC Genomics, 2020, v. 21 n. 1, p. article no. 32-
dc.identifier.issn1471-2164-
dc.identifier.urihttp://hdl.handle.net/10722/304838-
dc.description.abstractBackground: Decapods are an order of crustaceans which includes shrimps, crabs, lobsters and crayfish. They occur worldwide and are of great scientific interest as well as being of ecological and economic importance in fisheries and aquaculture. However, our knowledge of their biology mainly comes from the group which is most closely related to crustaceans – insects. Here we produce a de novo transcriptome database, crustacean annotated transcriptome (CAT) database, spanning multiple tissues and the life stages of seven crustaceans. Description: A total of 71 transcriptome assemblies from six decapod species and a stomatopod species, including the coral shrimp Stenopus hispidus, the cherry shrimp Neocaridina davidi, the redclaw crayfish Cherax quadricarinatus, the spiny lobster Panulirus ornatus, the red king crab Paralithodes camtschaticus, the coconut crab Birgus latro, and the zebra mantis shrimp Lysiosquillina maculata, were generated. Differential gene expression analyses within species were generated as a reference and included in a graphical user interface database at http://cat.sls.cuhk.edu.hk/. Users can carry out gene name searches and also access gene sequences based on a sequence query using the BLAST search function. Conclusions: The data generated and deposited in this database offers a valuable resource for the further study of these crustaceans, as well as being of use in aquaculture development.-
dc.languageeng-
dc.publisherBioMed Central Ltd. The Journal's web site is located at http://www.biomedcentral.com/bmcgenomics/-
dc.relation.ispartofBMC Genomics-
dc.rightsBMC Genomics. Copyright © BioMed Central Ltd.-
dc.rightsThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.-
dc.titleA crustacean annotated transcriptome (CAT) database-
dc.typeArticle-
dc.identifier.emailChow, BKC: bkcc@hku.hk-
dc.identifier.authorityChow, BKC=rp00681-
dc.description.naturepublished_or_final_version-
dc.identifier.doi10.1186/s12864-019-6433-3-
dc.identifier.pmid31918660-
dc.identifier.pmcidPMC6953184-
dc.identifier.scopuseid_2-s2.0-85077721398-
dc.identifier.hkuros326286-
dc.identifier.volume21-
dc.identifier.issue1-
dc.identifier.spagearticle no. 32-
dc.identifier.epagearticle no. 32-
dc.identifier.isiWOS:000513656600003-
dc.publisher.placeUnited Kingdom-

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