Go to the content. | Move to the navigation | Go to the site search | Go to the menu | Contacts | Accessibility

| Create Account

Vidotto, Michele (2013) Transcriptomic analysis of the polyploid Adriatic sturgeon (Acipenser naccarii). [Ph.D. thesis]

Full text disponibile come:

[img]
Preview
PDF Document
8Mb

Abstract (english)

Sturgeons are a group of Condrostean fishes with very high evolutionary, economical and conservation interest. The eggs of these living fossils represent a luxury delicacy and are one of the most valuable foods of animal origin. The intense exploitation of wild stocks for the harvesting of caviar caused in the last decades a dramatic decline of their distribution and abundance leading, in 2010, the International Union for Conservation of Nature to list them as the more endangered group of species. As a direct consequence, world-wide efforts have been made to develop sturgeon aquaculture programmes for caviar production. In this context, selective farming of females would increase the economical profits and the characterisation of genes involved in sex determination becomes a major issue. The 454 sequencing of four normalised cDNA libraries from gonads and brain of A naccarii and A. stellatus, one male and one female full-sib per species, yielded 182,066 and 167,776 reads for A. naccarii which after a strict quality control were iteratively assembled together, giving more then 55,000 high quality Expressed sequence tags (ESTs). A total of 184,374 and 169,286 raw reads were instead produced for A. stellaus male and female libraries respectively, resulting in 63,606 ESTs after two round assembly. It was estimated the joint assembly of A. naccarii was able to cover about 80% of its total transcripts expressed in both gonad and brain with a mean contigs coverage of 4X. Similarly 86% transcriptome coverage was achieved by assembling both sex specific libraries of A. stellatus, with 3.6X as mean contig coverage. The Multi-step annotation process finally results in 16% and 15% successfully annotated sequences, with GO terms, respectively in A. naccarii and A. stellatus. Both transcriptomes were screened for 32 sex related genes and highlighted 5 and 2 genes that are potentially specifically expressed in A. naccarii male and female, at the first life stage at which sex is histologically identifiable. The screening in A. stellatus is currently at preliminary stage and further filtering steps are required. Both sturgeon transcriptomes were also compared with those of other fish species for which relevant genomic informations were available. Finally, 21,791 putative EST-linked Single Nucleotide Polymorphisms (SNPs) and 5,295 Single Sequence Repeats (SSRs) were identified in A. naccarii, while 15,449 and 5,696 were putatively classified in A. stellatus assembly. This study represents the first characterisation of transcriptomes from two high endangered sturgeon species. Most of the information acquired for A. naccarii were well organised into the public database AnaccariiBase, freely available at http://compgen.bio.unipd.it/anaccariibase/, while the information obtained for A stellatus will be released soon. This study represents a precious source of information for more focussed studies aimed at characterising or comparing genes, deciphering molecular mechanisms or genetic pathways in this group of species, or discovering hundreds of EST-linked markers with several possible applications in sturgeon conservation.

Abstract (italian)

Gli storioni sono un gruppo di pesci Condrostei, di elevato interesse evoluzionistico, economico e di conservazione. Le uova di questi fossili viventi costituiscono uno degli alimenti di origine animale più preziosi sul mercato. L'intenso sfruttamento delle popolazioni selvatiche per la raccolta del caviale ha causato, negli ultimi decenni, un calo drammatico della loro distribuzione ed abbondanza che ha portato, nel 2010, l'Unione Internazionale per la Conservazione della Natura ad indicarli come il gruppo di specie a maggior rischio di estinzione. Come diretta conseguenza, sono stati compiuti sforzi notevoli, in tutto il mondo, per sviluppare programmi finalizzati alla produzione di caviale via acquacoltura. In questo contesto, l'allevamento selettivo delle femmine aumenterebbe i profitti economici e la caratterizzazione dei geni coinvolti nella determinazione del sesso, diventa decisiva. Il sequenziamento 454 di quattro librerie di cDNA normalizzate, costruite a partire da gonadi e cervello di A naccarii e A. stellatus, un maschio ed una femmina (fratelli) per specie, ha prodotto 182,066 e 167,776 reads grezze rispettivamente per i due sessi di A naccarii, che dopo un severo controllo di qualità sono state assemblate insieme attraverso un processo iterativo, risultando in più di 55,000 Expressed Sequence Tags (ESTs) di qualità elevata. Per la specie A. stellatus, invece, sono state prodotte 184,374 reads per la libreria maschile e 169,286 per quella femminile, allineate in 63,606 ESTs dopo due giri di assemblaggio. E’ stato stimato che, l’assemblaggio di A. naccarii contenga i tag di circa l’80% dei trascritti totali espressi in gonadi e cervello, in questa specie, con una copertura media dei contigs pari a 4X. La copertura del trascrittoma di A. stellatus è stata stimata in circa l’86%, con 3.6X come media di copertura dei contigs. Il processo di annotazione multi-fase, ha portato ad annotare correttamente, con termini GO circa 16% ed il 15% delle sequenze, rispettivamente in A. naccarii ed A. stellatus. Entrambi i trascrittomi sono stati interrogati alla ricerca di 32 geni legati al sesso e sono stati evidenziati 5 geni potenzialmente espressi in modo specifico nel maschio e 2 nella femmina di A. naccarii, nel primo stadio di sviluppo, in cui il sesso è istologicamente identificabile. La ricerca nel trascrittoma di A. stellatus è attualmente preliminare e sono necessarie ulteriori fasi di filtraggio. Entrambi i trascrittomi sono stati confrontati con quelli di altre specie di pesci, per la quali erano disponibili rilevanti informazioni genomiche. Infine, 21.791 putativi Single Nucleotide Polymorphisms (SNPs) e 5.295 Single Sequence Repeats (SSR) EST-linked sono stati identificati in A. naccarii, mentre 15.449 e 5.696 sono stati rispettivamente classificati nell’assemblaggio di A. stellatus. Questo studio rappresenta la prima caratterizzazione dei trascrittomi di due specie di storione ad elevato rischio di estinzione. Gran parte delle informazioni acquisite per la specie A. naccarii sono state organizzati all’interno della banca dati pubblica AnaccariiBase, liberamente disponibile all’indirizzo http://compgen.bio.unipd.it/anaccariibase/, mentre le informazioni ottenute per A stellatus saranno rilasciate al più presto. Questa analisi rappresenta una preziosa fonte di informazioni per ulteriori studi più mirati, volti a caratterizzare o confrontare geni, a decifrare i meccanismi molecolari o le vie genetiche in questo gruppo di specie, o a scoprire centinaia di marcatori associati ad ESTs per diverse applicazioni nella conservazione dello storione.

Statistiche Download - Aggiungi a RefWorks
EPrint type:Ph.D. thesis
Tutor:Congiu, Leonardo
Ph.D. course:Ciclo 25 > Scuole 25 > BIOSCIENZE E BIOTECNOLOGIE > BIOLOGIA EVOLUZIONISTICA
Data di deposito della tesi:31 January 2013
Anno di Pubblicazione:31 January 2013
Key Words:bioinformatics transcriptomic analysis sturgeon evolution
Settori scientifico-disciplinari MIUR:Area 05 - Scienze biologiche > BIO/11 Biologia molecolare
Struttura di riferimento:Dipartimenti > Dipartimento di Biologia
Codice ID:5489
Depositato il:14 Oct 2013 13:08
Simple Metadata
Full Metadata
EndNote Format

Bibliografia

I riferimenti della bibliografia possono essere cercati con Cerca la citazione di AIRE, copiando il titolo dell'articolo (o del libro) e la rivista (se presente) nei campi appositi di "Cerca la Citazione di AIRE".
Le url contenute in alcuni riferimenti sono raggiungibili cliccando sul link alla fine della citazione (Vai!) e tramite Google (Ricerca con Google). Il risultato dipende dalla formattazione della citazione.

Altenhoff, A.M. & Dessimoz, C., 2009. Phylogenetic and functional assessment of orthologs inference projects and methods. PLoS computational biology, 5(1), p.e1000262. Cerca con Google

Amberg, J.J. et al., 2009. Sexually dimorphic gene expression in the gonad and liver of shovelnose sturgeon (Scaphirhynchus platorynchus). Fish Physiology and Biochemistry, 36, pp.923–932. Cerca con Google

Amemiya, C.T., Lander, E.S. & Myers, R.M., A white paper for sequencing the genome of a living fossil: the coelacanth, Latimeria chalumnae. Cerca con Google

Andrews Simon, FastQC, Babraham Bioinformatics. Available at: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/. Vai! Cerca con Google

Baillargeon, S. & Rivest, L.P., 2007. Rcapture: loglinear models for capture-recapture in R. Journal of Statistcal Software, 19(5). Cerca con Google

Berbejillo, J. et al., 2012. Expression of dmrt1 and sox9 during gonadal development in the Siberian sturgeon (Acipenser baerii). Fish Physiology and Biochemistry. Cerca con Google

Birol, I. et al., 2009. De novo transcriptome assembly with ABySS. Bioinformatics, 25(21), pp.2872–2877. Cerca con Google

Birstein, V.J. & Vasiliev, V.P., 1987. Tetraploid-octoploid relationships and karyological evolution in the order Acipenseriformes (Pisces) karyotypes, nucleoli, and nucleolus-organizer regions in four acipenserid species. Genetica, 72(1), pp.3–12. Cerca con Google

Bobrowicz, A.J., Lightowlers, R.N. & Chrzanowska-Lightowlers, Z., 2008. Polyadenylation and degradation of mRNA in mammalian mitochondria: a missing link? Biochemical Society Transactions, 36(Pt 3), pp.517–519. Cerca con Google

Boscari, E., Barbisan, F. & Congiu, L., 2011. Inheritance pattern of microsatellite loci in the polyploid Adriatic sturgeon (Acipenser naccarii). Aquaculture, 321(3-4), pp.223–229. Cerca con Google

Brockman, W. et al., 2008. Quality scores and SNP detection in sequencing-by-synthesis systems. Genome Research, 18, pp.763–770. Cerca con Google

Bronzi, P. et al., 1994. Sturgeon distribution in Italy. Presentation at the International Conference on Sturgeon Biodiversity and Conservation. In the American Museum of Natural History, New York, USA. Cerca con Google

Bronzi, P., Rosenthal, H. & Gessner, J., 2011. Global sturgeon aquaculture production: an overview. Journal of Applied Ichthyology, 27(2), pp.169–175. Cerca con Google

Camacho, C. et al., 2009. BLAST+: architecture and applications. BMC Bioinformatics, 10, p.421. Cerca con Google

Cao, H. et al., 2011. EST dataset of pituitary and identification of somatolactin and novel genes in Chinese sturgeon, Acipenser sinensis. Molecular Biology Reports. Cerca con Google

Carmona, R., 2009. Biology, Conservation and Sustainable Development of Sturgeons, Springer. Cerca con Google

Chao, A., 1989. Estimating Population Size for Sparse Data in Capture-Recapture Experiments. Biometrics, 45(2), pp.427–438. Cerca con Google

Cheung, F. et al., 2006. Sequencing Medicago truncatula expressed sequenced tags using 454 Life Sciences technology. BMC Genomics, 7, p.272. Cerca con Google

Chevreux, B., Sequence assembly with MIRA3. The Definitive Guide. Available at: http://mira-assembler.sourceforge.net/docs/DefinitiveGuideToMIRA.html. Vai! Cerca con Google

Chevreux, B. et al., 2004. Using the miraEST Assembler for Reliable and Automated mRNA Transcript Assembly and SNP Detection in Sequenced ESTs. Genome Research, 14(6), pp.1147 –1159. Cerca con Google

Chicca, M. et al., 2002. Karyotype characterization of the stellate sturgeon, Acipenser stellatus by chromosome banding and fluorescent in situ hybridization. Journal of Applied Ichthyology, 18(4-6), pp.298–300. Cerca con Google

Congiu, Leonardo et al., 2011a. Managing polyploidy in ex situ conservation genetics: the case of the critically endangered Adriatic sturgeon (Acipenser naccarii). PloS one, 6(3), p.e18249. Cerca con Google

Congiu, Leonardo et al., 2011b. Managing Polyploidy in Ex Situ Conservation Genetics: The Case of the Critically Endangered Adriatic Sturgeon (Acipenser naccarii). PLoS ONE, 6(3) Cerca con Google

Coppe, A. et al., 2010. Sequencing, de novo annotation and analysis of the first Anguilla anguilla transcriptome: EeelBase opens new perspectives for the study of the critically endangered European eel. BMC Genomics, 11, p.635. Cerca con Google

Crowhurst, R.N. et al., 2008. Analysis of expressed sequence tags from Actinidia: applications of a cross species EST database for gene discovery in the areas of flavor, health, color and ripening. BMC Genomics, 9(1), p.351. Cerca con Google

Doukakis, P. et al., 2002. Molecular genetic analysis among subspecies of two Eurasian sturgeon species, Acipenser baerii and A. stellatus. Molecular Ecology, 8(s1), pp.S117–S127. Cerca con Google

Van Eenennaam, A.L. et al., 1999a. Evidence of female heterogametic genetic sex determination in white sturgeon. Journal of Heredity, 90(1), pp.231–233. Cerca con Google

Van Eenennaam, A.L. et al., 1999b. Evidence of female heterogametic genetic sex determination in white sturgeon. Journal of Heredity, 90(1), pp.231–233. Cerca con Google

Ewing, B. & Green, P., 2000. Analysis of expressed sequence tags indicates 35,000 human genes. Nature genetics, 25(2), pp.232–234. Cerca con Google

Ferguson-Smith, M., 2007. The Evolution of Sex Chromosomes and Sex Determination in Vertebrates and the Key Role of DMRT1. Sexual Development, 1, pp.2–11. Cerca con Google

Finn, R.D. et al., 2009. The Pfam protein families database. Nucleic Acids Research, 38(Database), pp.D211–D222. Cerca con Google

Finotello, F. et al., 2012. Comparative Analysis of Algorithms for Whole-Genome Assembly of Pyrosequencing Data. Briefings in Bioinformatics, 13(3), pp.269–280. Cerca con Google

Fontana, F, Tagliavini, J. & Congiu, L, 2001. Sturgeon genetics and cytogenetics: recent advancements and perspectives. Genetica, 111(1-3), pp.359–373. Cerca con Google

Fontana, F., Lanfredi, M., et al., 2008. Comparison of karyotypes of Acipenser oxyrinchus and A. sturio by chromosome banding and fluorescent in situ hybridization. Genetica, 132(3), pp.281–286. Cerca con Google

Fontana, F., Congiu, L., et al., 2008. Evidence of hexaploid karyotype in shortnose sturgeon. Genome, 51(2), pp.113–119. Cerca con Google

Force, A. et al., 1999. Preservation of duplicate genes by complementary, degenerative mutations. Genetics, 151(4), pp.1531–1545. Cerca con Google

Franssen, S.U. et al., 2011. Comprehensive transcriptome analysis of the highly complex Pisum sativum genome using next generation sequencing. BMC Genomics, 12, p.227. Cerca con Google

Fu, L. et al., 2012. CD-HIT: accelerated for clustering the next-generation sequencing data. Bioinformatics (Oxford, England), 28(23), pp.3150–3152. Cerca con Google

Garrison, E. & Marth, G., 2012. Haplotype-based variant detection from short-read sequencing. arXiv preprint arXiv:1207.3907 Cerca con Google

Gilles, A. et al., 2011. Accuracy and quality assessment of 454 GS-FLX Titanium pyrosequencing. BMC Genomics, 12, p.245. Cerca con Google

Giovannini, G. et al., 1991. Growth of hatchery produced juveniles of Italian sturgeon, Acipenser naccarii Bonaparte, reared intensively in fresh water. P. Williot (ed.) Acipenser, Cemagref Publ., Bordeaux, pp.401–404. Cerca con Google

Glenn, T.C., 2011. Field guide to next-generation DNA sequencers. Molecular Ecology Resources. Cerca con Google

Götz, S. et al., 2008. High-throughput functional annotation and data mining with the Blast2GO suite. Nucleic Acids Research, 36(10), pp.3420–3435. Cerca con Google

Grandi, G. & Chicca, Milvia, 2008. Histological and ultrastructural investigation of early gonad development and sex differentiation in Adriatic sturgeon (Acipenser naccarii, Acipenseriformes, Chondrostei). Journal of Morphology, 269(10), pp.1238–1262. Cerca con Google

Hale, M.C. et al., 2009. Next-generation pyrosequencing of gonad transcriptomes in the polyploid lake sturgeon (Acipenser fulvescens): the relative merits of normalization and rarefaction in gene discovery. BMC Genomics, 10, p.203. Cerca con Google

Hale, M.C., Jackson, J.R. & DeWoody, J. Andrew, 2010. Discovery and evaluation of candidate sex-determining genes and xenobiotics in the gonads of lake sturgeon (Acipenser fulvescens). Genetica, 138, pp.745–756. Cerca con Google

Hett, A. K. et al., 2005. Characterization of Sox9 in European Atlantic Sturgeon (Acipenser sturio). Journal of Heredity, 96(2), pp.150–154. Cerca con Google

Hett, Anne Kathrin & Ludwig, Arne, 2005. SRY-related (Sox) genes in the genome of European Atlantic sturgeon (Acipenser sturio). Genome / National Research Council Canada, 48(2), pp.181–186. Cerca con Google

Huang, X. & Madan, A., 1999. CAP3: A DNA Sequence Assembly Program. Genome Research, 9(9), pp.868–877. Cerca con Google

Huson, D.H. et al., 2011. Integrative analysis of environmental sequences using MEGAN4. Genome Research, 21(9), pp.1552–1560. Cerca con Google

Jaillon, O. et al., 2004. Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature, 431(7011), pp.946–957. Cerca con Google

Kai, W. et al., 2011. Integration of the Genetic Map and Genome Assembly of Fugu Facilitates Insights into Distinct Features of Genome Evolution in Teleosts and Mammals. Genome Biology and Evolution, 3(0), pp.424–442. Cerca con Google

Kasahara, M, 2007. The 2R hypothesis: an update. Current Opinion in Immunology, 19(5), pp.547–552. Cerca con Google

Kasahara, Masahiro et al., 2007. The medaka draft genome and insights into vertebrate genome evolution. Nature, 447(7145), pp.714–719. Cerca con Google

Katoh, K. & Frith, M.C., 2012. Adding unaligned sequences into an existing alignment using MAFFT and LAST. Bioinformatics. Cerca con Google

Kaur, S., Francki, M.G. & Forster, J.W., 2011. Identification, characterization and interpretation of single-nucleotide sequence variation in allopolyploid crop species. Plant biotechnology journal, 10(2), pp.125–138. Cerca con Google

Keyvanshokooh, S., Pourkazemi, M. & Kalbassi, M.R., 2007. The RAPD technique failed to identify sex-specific sequences in beluga (Huso huso). Journal of Applied Ichthyology, 23(1), pp.1–2. Cerca con Google

Keyvanshokooh, Saeed et al., 2009. Comparative proteomics analysis of male and female Persian sturgeon (Acipenser persicus) gonads. Animal Reproduction Science, 111(2-4), pp.361–368. Cerca con Google

Kimura, M., 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of molecular evolution, 16(2), pp.111–120. Cerca con Google

Krieger, J. & Fuerst, P.A., 2002. Evidence for a slowed rate of molecular evolution in the order acipenseriformes. Molecular biology and evolution, 19(6), pp.891–897. Cerca con Google

Kumar, S. & Blaxter, M.L., 2010. Comparing de novo assemblers for 454 transcriptome data. BMC Genomics, 11(1), p.571. Cerca con Google

Lazzari, B. et al., 2008. A comparative gene index for the white sturgeon Acipenser transmontanus. Marine Genomics, 1(1), pp.15–21. Cerca con Google

Li, H. et al., 2009. The Sequence Alignment/Map format and SAMtools. Bioinformatics (Oxford, England), 25(16), pp.2078–2079. Cerca con Google

Liu, L. et al., 2012. Comparison of Next-Generation Sequencing Systems. Journal of Biomedicine and Biotechnology, 2012, pp.1–11. Cerca con Google

Ludwig, A et al., 2001. Genome duplication events and functional reduction of ploidy levels in sturgeon (Acipenser, Huso and Scaphirhynchus). Genetics, 158(3), pp.1203–1215. Cerca con Google

Ludwig, A., 2008. Identification of Acipenseriformes species in trade. Journal of Applied Ichthyology, 24, pp.2–19. Cerca con Google

MacCallum, I. et al., 2009. ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads. Genome Biology, 10(10), p.R103. Cerca con Google

Martin, J.A. & Wang, Z., 2011. Next-generation transcriptome assembly. Nat Rev Genet, 12(10), pp.671–682. Cerca con Google

McClelland, K., Bowles, J. & Koopman, P., 2012. Male sex determination: insights into molecular mechanisms. Asian Journal of Andrology, 14(1), pp.164–171. Cerca con Google

McCormick, C. R., Bos, D.H. & DeWoody, J. A., 2008. Multiple molecular approaches yield no evidence for sex-determining genes in lake sturgeon (Acipenser fulvescens ). Journal of Applied Ichthyology. Cerca con Google

Metzker, M.L., 2010. Sequencing technologies — the next generation. Nature Reviews Genetics, 11(1), pp.31–46. Cerca con Google

Meyer, E. et al., 2009. Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx. BMC Genomics, 10, p.219. Cerca con Google

Miller, J.R., Koren, S. & Sutton, Granger, 2010. Assembly Algorithms for Next-Generation Sequencing Data. Genomics, 95(6), pp.315–327. Cerca con Google

Mudunuri, S.B. et al., 2010. Comparative analysis of microsatellite detecting software: a significant variation in results and influence of parameters. In Proceedings of the International Symposium on Biocomputing. p. 38. Cerca con Google

Nawrocki, E.P., Kolbe, D.L. & Eddy, Sean R., 2009. Infernal 1.0: inference of RNA alignments. Bioinformatics, 25(10), pp.1335–1337. Cerca con Google

Nielsen, R. et al., 2011. Genotype and SNP calling from next-generation sequencing data. Nat Rev Genet, 12(6), pp.443–451. Cerca con Google

Ning, Z., Cox, A.J. & Mullikin, J.C., 2001. SSAHA: a fast search method for large DNA databases. Genome Research, 11(10), pp.1725–1729. Cerca con Google

Pala, I. et al., 2009. Sex Determination in the Squalius alburnoides Complex: An Initial Characterization of Sex Cascade Elements in the Context of a Hybrid Polyploid Genome I. Dworkin, ed. PLoS ONE, 4, p.e6401. Cerca con Google

Pang, K.C., Frith, M.C. & Mattick, J.S., 2006. Rapid evolution of noncoding RNAs: lack of conservation does not mean lack of function. Trends in Genetics, 22(1), pp.1–5. Cerca con Google

Papanicolaou, A. et al., 2009. Next generation transcriptomes for next generation genomes using est2assembly. BMC Bioinformatics, 10(1), p.447. Cerca con Google

Pauchet, Y. et al., 2010. Pyrosequencing the Manduca sexta larval midgut transcriptome: messages for digestion, detoxification and defence. Insect Molecular Biology, 19(1), pp.61–75. Cerca con Google

Peng, H., Zhang, J. & Wu, X., 2008. The ploidy effects in plant gene expression: Progress, problems and prospects. Science in China Series C: Life Sciences, 51(4), pp.295–301. Cerca con Google

Postlethwait, J.H. et al., 2000. Zebrafish Comparative Genomics and the Origins of Vertebrate Chromosomes. Genome Research, 10(12), pp.1890–1902. Cerca con Google

Pujolar, José Martin et al., 2012. Tana1, a new putatively active Tc1-like transposable element in the genome of sturgeons. Molecular Phylogenetics and Evolution. Cerca con Google

Quinlan, A.R. & Hall, I.M., 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics (Oxford, England), 26(6), pp.841–842. Cerca con Google

Rorbach, J. & Minczuk, M., 2012. The post-transcriptional life of mammalian mitochondrial RNA. Biochemical Journal, 444(3), pp.357–373. Cerca con Google

Sales, G., 2008. Functional sequence detection using whole-genome paralogous alignments. Ph. D. thesis. Università degli studi di Torino. Cerca con Google

Schwartz, T.S. et al., 2010. A garter snake transcriptome: pyrosequencing, de novo assembly, and sex-specific differences. BMC Genomics, 11, p.694. Cerca con Google

Shirak, A. et al., 2006. Amh and Dmrta2 Genes Map to Tilapia (Oreochromis spp.) Linkage Group 23 Within Quantitative Trait Locus Regions for Sex Determination. Genetics, 174, pp.1573–1581. Cerca con Google

Sturgeons, P. by the participants of the 5th I.S. on, 2006. Ramsar Declaration on Global Sturgeon Conservation. Journal of Applied Ichthyology, 22, pp.5–12. Cerca con Google

Sutton, GG et al., 1995. TIGR Assembler: A new tool for assembling large shotgun sequencing projects. Genome Science & Technology, 1, pp.9–19. Cerca con Google

Thiel, T. et al., 2003. Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.). Theoretical and Applied Genetics, 106(3), pp.411–422. Cerca con Google

Trick, M. et al., 2012. Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat. BMC Plant Biology, 12(1), p.14. Cerca con Google

Trick, M. et al., 2009. Single nucleotide polymorphism (SNP) discovery in the polyploid Brassica napus using Solexa transcriptome sequencing. Plant Biotechnology Journal, 7(4), pp.334–346. Cerca con Google

Vera, J.C. et al., 2008. Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing. Molecular Ecology, 17(7), pp.1636–1647. Cerca con Google

Viegas, C.S.B. et al., 2008. Gla-rich Protein (GRP), A New Vitamin K-dependent Protein Identified from Sturgeon Cartilage and Highly Conserved in Vertebrates. Journal of Biological Chemistry, 283, pp.36655–36664. Cerca con Google

Volff, J.N., 2004. Genome evolution and biodiversity in teleost fish. Heredity, 94(3), pp.280–294. Cerca con Google

Wang, Dengqiang et al., 2010. Evolution of MHC class I genes in two ancient fish, paddlefish (Polyodon spathula) and Chinese sturgeon (Acipenser sinensis). FEBS Letters, 584(15), pp.3331–3339. Cerca con Google

Wang, J.-T. et al., 2012. Transcriptome analysis reveals the time of the fourth round of genome duplication in common carp (Cyprinus carpio). BMC Genomics, 13(1), p.96. Cerca con Google

Wendel, J.F., 2000. Genome evolution in polyploids. Plant molecular biology, 42(1), pp.225–249. Cerca con Google

Wicker, T. et al., 2006. 454 sequencing put to the test using the complex genome of barley. BMC Genomics, 7, p.275. Cerca con Google

William Bemis, E.F., 2001. An overview of Acipenseriformes. , pp.25–71. Cerca con Google

Woods, I. G., 2005. The zebrafish gene map defines ancestral vertebrate chromosomes. Genome Research, 15(9), pp.1307–1314. Cerca con Google

Wuertz, S. et al., 2006. Extensive screening of sturgeon genomes by random screening techniques revealed no sex-specific marker. Aquaculture, 258(1–4), pp.685–688. Cerca con Google

Wuertz, S., Belay, M. & Kirschbaum, Frank, 2007. On the risk of criminal manipulation in caviar trade by intended contamination of caviar with PCR products. Aquaculture, 269(1–4), pp.130–134. Cerca con Google

Yang, S. et al., 2010. Paradigm for industrial strain improvement identifies sodium acetate tolerance loci in Zymomonas mobilis and Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America, 107(23), pp.10395–10400. Cerca con Google

Yarmohammadi, M. et al., 2012. AFLP reveals no sex-specific markers in Persian sturgeon (Acipenser persicus) or beluga sturgeon (Huso huso) from the southern Caspian Sea, Iran. Progress in Biological Sciences, 1(1), pp.55–114. Cerca con Google

Zerbino, D.R. & Birney, E., 2008. Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Research, 18(5), pp.821–829. Cerca con Google

Zhulidov, P.A. et al., 2004. Simple cDNA normalization using kamchatka crab duplex-specific nuclease. Nucleic Acids Research, 32(3), p.e37. Cerca con Google

Download statistics

Solo per lo Staff dell Archivio: Modifica questo record