Transcriptomic and peptidomic analysis of protein hydrolysates from the white shrimp (L. vannamei)

Journal of Biotechnology

Volumn 186, Issue , 2014, Pages 30-37

  Robert, Marie ^a,b   Zatylny Gaudin, Céline ^a,b   Fournier, Vincent ^c   Corre, Erwan ^d   Le Corguillé, Gildas ^d   Bernay, Benoît ^a   Henry, Joël ^a,b  

^a UNIVERSITÉ DE CAEN   (France)

^b CNRS   (France)

^c Aquativ (Diana Group) ZA du Gohelis   (France)

^d SORBONNE UNIVERSITÉ   (France)

Author keywords

Antimicrobial activity; Litopenaeus vannamei hydrolysate; Mass spectrometry; OFFGEL electrophoresis; RNAseq

Indexed keywords

ELECTROPHORESIS; MASS SPECTROMETRY; MOLECULAR MASS; SHELLFISH;

ANTI-MICROBIAL ACTIVITY; ANTI-MICROBIAL PROPERTIES; FUNCTIONAL ACTIVITIES; HIGH PERFORMANCE SIZE EXCLUSION CHROMATOGRAPHY; LITOPENAEUS VANNAMEI; MOLECULAR MASS DISTRIBUTIONS; PROTEIN HYDROLYSATE; RNASEQ;

PEPTIDES;

PROTEIN HYDROLYSATE; RNA; ANTIINFECTIVE AGENT; PEPTIDE; PROTEOME;

ANTIMICROBIAL ACTIVITY; AQUACULTURE; ARTICLE; BIOLOGICAL ACTIVITY; CHEMICAL COMPOSITION; CHROMATOGRAPHY; ELECTROSPRAY MASS SPECTROMETRY; HIGH PERFORMANCE SIZE EXCLUSION CHROMATOGRAPHY; LITOPENAEUS VANNAMEI; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MOLECULAR WEIGHT; NONHUMAN; PEPTIDOMICS; PRIORITY JOURNAL; PROTEIN ANALYSIS; RNA SEQUENCE; TRANSCRIPTOMICS; AMINO ACID SEQUENCE; ANIMAL; BACTERIUM; CHEMISTRY; DRUG EFFECTS; GENE EXPRESSION PROFILING; GENETICS; HYDROLYSIS; LIQUID CHROMATOGRAPHY; MOLECULAR GENETICS; PENAEIDAE; PROTEOMICS; SEQUENCE ANALYSIS;

AMINO ACID SEQUENCE; ANIMALS; ANTI-BACTERIAL AGENTS; BACTERIA; CHROMATOGRAPHY, LIQUID; GENE EXPRESSION PROFILING; HYDROLYSIS; MASS SPECTROMETRY; MOLECULAR SEQUENCE DATA; PENAEIDAE; PEPTIDES; PROTEIN HYDROLYSATES; PROTEOME; PROTEOMICS; SEQUENCE ANALYSIS, PROTEIN;

EID: 84904335610     PISSN: 01681656     EISSN: 18734863     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2014.06.020     Document Type: Article

References (33)

1. Aksnes A., Hope B., Jönsson E., Björnsson B.T., Albrektsen S. Size-fractionated fish hydrolysate as feed ingredient for rainbow trout (Oncorhynchus mykiss) fed high plant protein diets. I: growth, growth regulation and feed utilization. Aquaculture 2006, 261:305-317.
2. Benjakul S., Binsan W., Visessanguan W., Osako K., Tanaka M. Effects of flavourzyme on yield and some biological activities of Mungoong, an extract paste from the cephalothorax of white shrimp. J. Food Sci. 2009, 74:S73-S80.
3. Chalamaiah M., Dinesh kumar B., Hemalatha R., Jyothirmayi T. Fish protein hydrolysates: proximate composition, amino acid composition, antioxidant activities and applications: a review. Food Chem. 2012, 135:3020-3038.
4. Church F.C., Swaisgood H.E., Porter D.H., Catignani G.L. Spectrophotometric assay using o-Phthaldialdehyde for determination of proteolysis in milk and isolated milk proteins. J. Dairy Sci. 1983, 66(6):1219-1227.
5. Destoumieux-Garzón D., Saulnier D., Garnier J., Jouffrey C., Bulet P., Bachère E. Crustacean Immunity, Antifungal peptides are generted from the C-terminus of shrimp hemocyanin in response to microbial challenge. J. Biol. Chem. 2001, 276:47070-47077.
6. Duncan M.W., Roder H., Hunsucker S.W. Quantitative matrix-assisted laser desorption/ionization mass spectrometry. Brief. Funct. Genomic. Proteomic. 2008, 7:355-370.
7. Espe M., Sveier H., Høgøy I., Lied E. Nutrient absorption and growth of Atlantic salmon (Salmo salar L.) fed fish protein concentrate. Aquaculture 1999, 174(1-2):119-137. 10.1016/S0044-8486(98)00502-X.
8. Grabherr M.G., Haas B.J., Yassour M., Levin J.Z., Thompson D.A., Amit I., Adiconis X., Fan L., Raychowdhury R., Zeng Q. Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat. Biotechnol. 2011, 29:644-652.
9. Hardy R.W., Gatlin-III D.M., Bureau D.P., D'Abramo L.R., Davis D.A., Halver J.E., Krogdahl Å., Médale F, Shiau S.-Y., Tocher D.R., et al. National Research Council: NutrientRequirements of Fish and Shrimp 2011, The National Academies Press, Washington, D.C, pp. 376.
10. Harnedy P.A., FitzGerald R.J. Bioactive peptides from marine processing waste and shellfish: a review. J. Funct. Foods 2012, 4:6-24.
11. Hetru C., Bulet P. Strategies for the isolation and characterization of antimicrobial peptides of invertebrates. Methods Mol. Biol. 1997, 78:35-49.
12. Hörth P., Miller C.A., Preckel T., Wenz C. Efficient fractionation and improved protein identification by peptide OFFGEL electrophoresis. Mol. Cell. Proteomics 2006, 5:1968-1974.
13. Je J.-Y., Park P.-J., Kim S.-K. Antioxidant activity of a peptide isolated from Alaska pollack (Theragra chalcogramma) frame protein hydrolysate. Food Res. Int. 2005, 38:45-50.
14. Johns P.W., Jacobs W.A., Phillips R.R., McKenna R.J., O'Kane K.A., McEwen J.W. Characterisation of peptide molecular mass distribution in commercial hydrolysates and hydrolysate-based nutritional products. Food Chem. 2011, 125:1041-1050.
15. Kasumyan A.O., DÖving K.B. Taste preferences in fishes. Fish Fish. 2003, 4:289-347.
16. Koopman R., Crombach N., Gijsen A.P., Walrand S., Fauquant J., Kies A.K., van Loon L.J. Ingestion of a protein hydrolysate is accompanied by an accelerated in vivo digestion and absorption rate when compared with its intact protein. Am. J. Clin. Nutr. 2009, 90(1):106-115.
17. Kousoulaki K., Albrektsen S., Langmyhr E., Olsen H.J., Campbell P., Aksnes A. The water soluble fraction in fish meal (stickwater) stimulates growth in Atlantic salmon (Salmo salar L.) given high plant protein diets. Aquaculture 2009, 289(1-2):74-83. 10.1016/j.aquaculture.2008.12.034.
18. Langmead B., Trapnell C., Pop M., Salzberg S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10. R25.
19. Li B., Dewey C.N. RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 2011, 12:323.
20. Liaset B., Lied E., Espe M. Enzymatic hydrolysis of by-products from the fish-filleting industry; chemical characterisation and nutritional evaluation. J. Sci. Food Agric. 2000, 80:581-589.
21. Liu Z., Dong S., Xu J., Zeng M., Song H., Zhao Y. Production of cysteine-rich antimicrobial peptide by digestion of oyster (Crassostrea gigas) with alcalase and bromelin. Food Control 2008, 19(3):231-235. 10.1016/j.foodcont.2007.03.004.
22. Ma B., Zhang K., Hendrie C., Liang C., Li M., Doherty-Kirby A., Lajoie G. PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry. Rapid Commun. Mass Spectrom. 2003, 17:2337-2342.
23. Martin M. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet J. 2011, 17:10.
24. Nedjar-Arroume N., Dubois-Delval V., Miloudi K., Daoud R., Krier F., Kouach M., Guillochon D. Isolation and characterization of four antibacterial peptides from bovine hemoglobin. Peptides 2006, 27(9):2082-2089. 10.1016/j.peptides.2006.03.033.
25. Qiu C., Sun J., Liu M., Wang B., Jiang K., Sun S., Wang L. Molecular Cloning of Hemocyanin cDNA from Fenneropenaeus chinensis and Antimicrobial Analysis of Two C-terminal Fragments 2013, Marine biotechnology, New York, NY. 10.1007/s10126-013-9519-y.
26. Rajapakse N., Mendis E., Jung W.-K., Je J.-Y., Kim S.-K. Purification of a radical scavenging peptide from fermented mussel sauce and its antioxidant properties. Food Res. Int. 2005, 38:175-182.
27. Refstie S., Olli J.J., Standal H. Feed intake, growth, and protein utilisation by post-smolt Atlantic salmon (Salmo salar) in response to graded levels of fish protein hydrolysate in the diet. Aquaculture 2004, 239(1-4):331-349. 10.1016/j.aquaculture.2004.06.015.
28. Schmelzer C.E., Schöps R., Ulbrich-Hofmann R., Neubert R.H., Raith K. Mass spectrometric characterization of peptides derived by peptic cleavage of bovine β-casein. J. Chromatogr. A 2004, 1055:87-92.
29. Schmieder R., Edwards R. Quality control and preprocessing of metagenomic datasets. Bioinformatics 2011, 27:863-864.
30. Schmieder R., Lim Y.W., Edwards R. Identification and removal of ribosomal RNA sequences from metatranscriptomes. Bioinformatics 2012, 28:433-435.
31. Siemensma A.D., Weijer W.J., Bak H.J. The importance of peptide lengths in hypoallergenic infant formulae. Trends Food Sci. Technol. 1993, 4:16-21.
32. Tang H., Wu T., Zhao Z., Pan X. Effects of fish protein hydrolysate on growth performance and humoral immune response in large yellow croaker (Pseudosciaena crocea R.). J. Zhejiang Univ. Sci. B 2008, 9(9):684-690.
33. Terjesen B.F., Lee K.-J., Zhang Y., Failla M., Dabrowski K. Optimization of dipeptide-protein mixtures in experimental diet formulations for rainbow trout (Oncorhynchus mykiss) alevins. Aquaculture 2006, 254(1-4):517-525. 10.1016/j.aquaculture.2005.11.013.