Transcriptomic Analysis of Marine Gastropod Provides Novel Insights into Conotoxin Genes

Overview

Journal Mar Drugs

Publisher MDPI

Specialties Biology
Pharmacology

Date 2019 Aug 14

PMID 31405144

Citations 6

Authors

Ronghua Li

Michael Bekaert

Luning Wu

Changkao Mu

Weiwei Song

Herve Migaud

Chunlin Wang

Affiliations

Soon will be listed here.

Abstract

The marine gastropod is served as a luxury food in Asian countries and used in traditional Chinese medicine to treat lumbago and deafness. The lack of genomic data on is a barrier to aquaculture development and functional characteristics of potential bioactive molecules are poorly understood. In the present study, we used high-throughput sequencing technologies to generate the first transcriptomic database of . A total of 41 unique conopeptides were retrieved from 44 unigenes, containing 6-cysteine frameworks belonging to four superfamilies. Duplication of mature regions and alternative splicing were also found in some of the conopeptides, and the de novo assembly identified a total of 76,306 transcripts with an average length of 824.6 nt, of which including 75,620 (99.1%) were annotated. In addition, simple sequence repeats (SSRs) detection identified 14,000 unigenes containing 20,735 SSRs, among which, 23 polymorphic SSRs were screened. Thirteen of these markers could be amplified in and seven in . This study provides reports of conopeptide genes in Buccinidae for the first time as well as genomic resources for further drug development, gene discovery and population resource studies of this species.

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References

Ashburner M, Ball C, Blake J, Botstein D, Butler H, Cherry J . Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet. 2000; 25(1):25-9. PMC: 3037419. DOI: 10.1038/75556. View

Kalinowski S, Taper M, Marshall T . Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol Ecol. 2007; 16(5):1099-106. DOI: 10.1111/j.1365-294X.2007.03089.x. View

Ellis J, Burke J . EST-SSRs as a resource for population genetic analyses. Heredity (Edinb). 2007; 99(2):125-32. DOI: 10.1038/sj.hdy.6801001. View

Dutertre S, Croker D, Daly N, Andersson A, Muttenthaler M, Lumsden N . Conopressin-T from Conus tulipa reveals an antagonist switch in vasopressin-like peptides. J Biol Chem. 2008; 283(11):7100-8. DOI: 10.1074/jbc.M706477200. View

Aguilar M, de la Rosa R, Falcon A, Olivera B, Heimer de la Cotera E . Peptide pal9a from the venom of the turrid snail Polystira albida from the Gulf of Mexico: purification, characterization, and comparison with P-conotoxin-like (framework IX) conoidean peptides. Peptides. 2008; 30(3):467-76. PMC: 2728929. DOI: 10.1016/j.peptides.2008.09.016. View

Kaas Q, Westermann J, Craik D . Conopeptide characterization and classifications: an analysis using ConoServer. Toxicon. 2010; 55(8):1491-509. DOI: 10.1016/j.toxicon.2010.03.002. View

Schmieder R, Edwards R . Quality control and preprocessing of metagenomic datasets. Bioinformatics. 2011; 27(6):863-4. PMC: 3051327. DOI: 10.1093/bioinformatics/btr026. View

Grabherr M, Haas B, Yassour M, Levin J, Thompson D, Amit I . Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol. 2011; 29(7):644-52. PMC: 3571712. DOI: 10.1038/nbt.1883. View

Rousset F . genepop'007: a complete re-implementation of the genepop software for Windows and Linux. Mol Ecol Resour. 2011; 8(1):103-6. DOI: 10.1111/j.1471-8286.2007.01931.x. View

10.

Sievers F, Wilm A, Dineen D, Gibson T, Karplus K, Li W . Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol. 2011; 7:539. PMC: 3261699. DOI: 10.1038/msb.2011.75. View

11.

Kaas Q, Yu R, Jin A, Dutertre S, Craik D . ConoServer: updated content, knowledge, and discovery tools in the conopeptide database. Nucleic Acids Res. 2011; 40(Database issue):D325-30. PMC: 3245185. DOI: 10.1093/nar/gkr886. View

12.

Altschul S, Gish W, Miller W, Myers E, Lipman D . Basic local alignment search tool. J Mol Biol. 1990; 215(3):403-10. DOI: 10.1016/S0022-2836(05)80360-2. View

13.

Koua D, Brauer A, Laht S, Kaplinski L, Favreau P, Remm M . ConoDictor: a tool for prediction of conopeptide superfamilies. Nucleic Acids Res. 2012; 40(Web Server issue):W238-41. PMC: 3394318. DOI: 10.1093/nar/gks337. View

14.

Untergasser A, Cutcutache I, Koressaar T, Ye J, Faircloth B, Remm M . Primer3--new capabilities and interfaces. Nucleic Acids Res. 2012; 40(15):e115. PMC: 3424584. DOI: 10.1093/nar/gks596. View

15.

Kopylova E, Noe L, Touzet H . SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data. Bioinformatics. 2012; 28(24):3211-7. DOI: 10.1093/bioinformatics/bts611. View

16.

Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P . The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res. 2012; 41(Database issue):D590-6. PMC: 3531112. DOI: 10.1093/nar/gks1219. View

17.

Wang S, Hou R, Bao Z, Du H, He Y, Su H . Transcriptome sequencing of Zhikong scallop (Chlamys farreri) and comparative transcriptomic analysis with Yesso scallop (Patinopecten yessoensis). PLoS One. 2013; 8(5):e63927. PMC: 3646770. DOI: 10.1371/journal.pone.0063927. View

18.

Lavergne V, Dutertre S, Jin A, Lewis R, Taft R, Alewood P . Systematic interrogation of the Conus marmoreus venom duct transcriptome with ConoSorter reveals 158 novel conotoxins and 13 new gene superfamilies. BMC Genomics. 2013; 14:708. PMC: 3853152. DOI: 10.1186/1471-2164-14-708. View

19.

Stamatakis A . RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics. 2014; 30(9):1312-3. PMC: 3998144. DOI: 10.1093/bioinformatics/btu033. View

20.

Jones P, Binns D, Chang H, Fraser M, Li W, McAnulla C . InterProScan 5: genome-scale protein function classification. Bioinformatics. 2014; 30(9):1236-40. PMC: 3998142. DOI: 10.1093/bioinformatics/btu031. View