The Anadara trapezia transcriptome: A resource for molluscan physiological genomics

Marine Genomics

Volumn 18, Issue PB, 2014, Pages 113-115

  Prentis, Peter J ^a   Pavasovic, Ana ^a  

^a QUEENSLAND UNIVERSITY OF TECHNOLOGY   (Australia)

Author keywords

Arcoida; Genomics; Mollusk; Non model organism; Physiology; Transcriptome

Indexed keywords

ANADARA TRAPEZIA; ARCOIDA;

PRIMER DNA; TRANSCRIPTOME;

ANIMAL; AUSTRALIA; BIOLOGY; BIVALVE; CONTIG MAPPING; GENE EXPRESSION PROFILING; GENE ONTOLOGY; GENETICS; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; SEQUENCE ANALYSIS;

ANIMALS; BASE SEQUENCE; BIVALVIA; COMPUTATIONAL BIOLOGY; CONTIG MAPPING; DNA PRIMERS; GENE EXPRESSION PROFILING; GENE ONTOLOGY; MOLECULAR SEQUENCE DATA; QUEENSLAND; SEQUENCE ANALYSIS, RNA; TRANSCRIPTOME;

EID: 84915782952     PISSN: 18747787     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.margen.2014.08.004     Document Type: Article

References (17)

1. Artigaud S., Thorne M.A.S., Richard J., Lavaud R., Jean F., et al. Deep sequencing of the mantle transcriptome of the great scallop Pecten maximus. Mar. Genomics 2014, 15:3-4.
2. Bao Y., Lin Z. Generation, annotation, and analysis of ESTs from hemocyte of the bloody clam, Tegillarca granosa. Fish Shellfish Immunol. 2010, 29:740-746.
3. Burt A., Maher W., Roach A., Krikowa F., Honkoop P., Bayne B. The accumulation of Zn, Se, Cd, and Pb and physiological condition of Anadara trapezia transplanted to a contamination gradient in Lake Macquarie, New South Wales, Australia. Mar. Environ. Res. 2007, 64:54-78.
4. Coppe A., Bortoluzzi S., Murari G., Marino I.A.M., Zane L., et al. Sequencing and characterization of striped venus clam transcriptome expand resources for clam fishery genetics. PLoS ONE 2012, 7:e44185.
5. Gayral P., Melo-Ferreira J., Glémin S., Bierne N., Carneiro M., et al. Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap. PLoS Genet. 2013, 9:e1003457.
6. Grabherr M.G., Haas B.J., Yassour M., Levin J.Z., Thompson D.A., et al. Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat. Biotechnol. 2011, 29:644-652.
7. Hou R., Bao Z.M., Wang S., Su H.L., Li Y., et al. Transcriptome sequencing and de novo analysis for Yesso scallop (Patinopecten yessoensis) using 454 GS FLX. PLoS One 2011, 6:e21560.
8. Huang X.-D., Zhao M., Liu W.-G., Guan Y.-Y., Shi Y., Wang Q., Wu S.-Z., He M.-X. Gigabase-scale transcriptome analysis on four species of pearl oysters. Mar. Biotechnol. 2013, 15:253-264.
9. Iseli C., Jongeneel C.V., Bucher P. ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences. Proc. Int. Conf. Intell Syst. Mol. Biol. 1999, 138-148.
10. McLusky D.S., Elliott M. The Estuarine Ecosystem 2004, John Wiley and Sons, New York.
11. Milan M., Coppe A., Reinhardt R., Cancela L.M., Leite R.B., et al. Transcriptome sequencing and microarray development for the Manila clam, Ruditapes philippinarum: genomic tools for environmental monitoring. BMC Genomics 2011, 12:234.
12. O'Gower A.K., Nicol P.I. A latitudinal cline of haemoglobins in a bivalve mollusc. Heredity 1968, 23:485-491.
13. Pante E., Rohfritsch A., Becquet V., Belkhir K., Bierne N., et al. SNP detection from de novo transcriptome sequencing in the bivalve Macoma balthica: marker development for evolutionary studies. PLoS ONE 2012, 7:e52302.
14. Pertea G., Huang X., Liang F., Antonescu V., Sultana R., et al. TIGR gene indices clustering tools (TGICL): a software system for fast clustering of large EST datasets. Bioinformatics 2003, 19:651-652.
15. Simakov O., Marletaz F., Cho S.J., Edsinger-Gonzales E., Havlak P., et al. Insights into bilaterian evolution from three spiralian genomes. Nature 2013, 493:526-531.
16. Yardin M.R. Genetic Variation in Andara trapezia (Sydney Cockle): Implications for the Recruitment of Marine Organisms 1997, (PhD thesis), University of Western Sydney, Faculty of Science and Technology.
17. Zhang G., Fang X., Guo X., Li L., Luo R., et al. The oyster genome reveals stress adaptation and complexity of shell formation. Nature 2012, 490:49-54.