Transcriptomic analysis of differentially expressed genes in the oviduct of Rhacophorus omeimontis provides insights into foam nest construction.
Foam nest
Immune defense
Lectin
Oviduct
Rhacophorus omeimontis
Transcriptome
Journal
BMC genomics
ISSN: 1471-2164
Titre abrégé: BMC Genomics
Pays: England
ID NLM: 100965258
Informations de publication
Date de publication:
08 Jul 2019
08 Jul 2019
Historique:
received:
29
11
2018
accepted:
24
06
2019
entrez:
10
7
2019
pubmed:
10
7
2019
medline:
18
12
2019
Statut:
epublish
Résumé
The production of foam nests is one of the strategies that has evolved to allow some anuran species to protect their eggs and larvae. Despite considerable knowledge of the biochemical components of and construction behavior leading to anuran foam nests, little is known about the molecular basis of foam nest construction. Rhacophorus omeimontis presents an arboreal foam-nesting strategy during the breeding season. To better understand the molecular mechanism of foam nest production, transcriptome sequencing was performed using the oviduct of female R. omeimontis during the period when foam nest production began and the period when foam nest production was finished. The transcriptomes of six oviduct samples of R. omeimontis were obtained using Illumina sequencing. A total of 84,917 unigenes were obtained, and 433 genes (270 upregulated and 163 downregulated) were differentially expressed between the two periods. These differentially expressed genes (DEGs) were mainly enriched in extracellular space and extracellular region based on Gene Ontology (GO) enrichment analysis and in the pathways of two-component system, cell adhesion molecules, steroid hormone biosynthesis and neuroactive ligand-receptor interaction based on Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis. Specifically, genes encoding lectins, surfactant proteins and immunity components were highly expressed when the foam nest construction began, indicating that the constituents of foam nests in R. omeimontis were likely a mixture of surfactant, lectins and immune defense proteins. During the period when foam nest production was finished, genes related to lipid metabolism, steroid hormone and immune defense were highly expressed, indicating their important roles in regulating the process of foam nesting. Our study provides a rich list of potential genes involved in the production of foam nests in R. omeimontis. These results provide insights into the molecular mechanisms underlying the process of foam nest construction and will facilitate further studies of R. omeimontis.
Sections du résumé
BACKGROUND
BACKGROUND
The production of foam nests is one of the strategies that has evolved to allow some anuran species to protect their eggs and larvae. Despite considerable knowledge of the biochemical components of and construction behavior leading to anuran foam nests, little is known about the molecular basis of foam nest construction. Rhacophorus omeimontis presents an arboreal foam-nesting strategy during the breeding season. To better understand the molecular mechanism of foam nest production, transcriptome sequencing was performed using the oviduct of female R. omeimontis during the period when foam nest production began and the period when foam nest production was finished.
RESULTS
RESULTS
The transcriptomes of six oviduct samples of R. omeimontis were obtained using Illumina sequencing. A total of 84,917 unigenes were obtained, and 433 genes (270 upregulated and 163 downregulated) were differentially expressed between the two periods. These differentially expressed genes (DEGs) were mainly enriched in extracellular space and extracellular region based on Gene Ontology (GO) enrichment analysis and in the pathways of two-component system, cell adhesion molecules, steroid hormone biosynthesis and neuroactive ligand-receptor interaction based on Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis. Specifically, genes encoding lectins, surfactant proteins and immunity components were highly expressed when the foam nest construction began, indicating that the constituents of foam nests in R. omeimontis were likely a mixture of surfactant, lectins and immune defense proteins. During the period when foam nest production was finished, genes related to lipid metabolism, steroid hormone and immune defense were highly expressed, indicating their important roles in regulating the process of foam nesting.
CONCLUSIONS
CONCLUSIONS
Our study provides a rich list of potential genes involved in the production of foam nests in R. omeimontis. These results provide insights into the molecular mechanisms underlying the process of foam nest construction and will facilitate further studies of R. omeimontis.
Identifiants
pubmed: 31286852
doi: 10.1186/s12864-019-5931-7
pii: 10.1186/s12864-019-5931-7
pmc: PMC6615284
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
562Subventions
Organisme : National Natural Science Foundation of China
ID : 31470442
Références
Proc Biol Sci. 2009 May 22;276(1663):1787-95
pubmed: 19324764
Nat Biotechnol. 2011 May 15;29(7):644-52
pubmed: 21572440
Baillieres Clin Haematol. 1995 Sep;8(3):617-37
pubmed: 8534964
Biophys J. 2009 Jun 17;96(12):4984-92
pubmed: 19527658
Proc Natl Acad Sci U S A. 2007 Feb 6;104(6):1745-50
pubmed: 17264211
Nat Protoc. 2013 Aug;8(8):1494-512
pubmed: 23845962
J Agric Food Chem. 2002 Oct 23;50(22):6605-11
pubmed: 12381159
Nat Methods. 2010 Nov;7(11):909-12
pubmed: 20935650
Oecologia. 1989 Feb;78(2):264-268
pubmed: 28312368
Int J Dev Biol. 2004 Dec;48(10):1119-29
pubmed: 15602698
J Lipid Res. 1988 Mar;29(3):245-71
pubmed: 3288703
Nature. 2003 Sep 25;425(6956):402-6
pubmed: 14508490
Biochim Biophys Acta. 2004 Nov 29;1695(1-3):225-33
pubmed: 15571818
Proc Natl Acad Sci U S A. 2008 Jun 3;105(22):7797-802
pubmed: 18509048
BMC Bioinformatics. 2003 Sep 11;4:41
pubmed: 12969510
PLoS One. 2014 Dec 31;9(12):e115884
pubmed: 25551466
BMC Cancer. 2015 Jun 16;15:471
pubmed: 26077911
Biophys J. 2005 Mar;88(3):2114-25
pubmed: 15626715
Cell Mol Life Sci. 2011 May;68(9):1491-502
pubmed: 21387144
Science. 2002 Nov 29;298(5599):1797-800
pubmed: 12459592
Biotechniques. 2005 Jan;38(1):73-83
pubmed: 15679089
FEBS Lett. 2000 Jun 30;476(1-2):32-7
pubmed: 10878245
Science. 2002 May 31;296(5573):1634-5
pubmed: 12040173
Ecology. 2006 Oct;87(10):2570-81
pubmed: 17089665
Genes Dev. 2001 Sep 15;15(18):2321-42
pubmed: 11562344
Science. 1981 Jun 12;212(4500):1229-38
pubmed: 6165083
Apoptosis. 2010 Mar;15(3):350-64
pubmed: 20238476
Colloids Surf A Physicochem Eng Asp. 2017 Dec 5;534:120-129
pubmed: 29276339
Arterioscler Thromb Vasc Biol. 1999 Jan;19(1):115-21
pubmed: 9888873
Comp Biochem Physiol B Biochem Mol Biol. 2009 Jan;152(1):38-46
pubmed: 18838126
Genome Biol. 2010;11(2):R14
pubmed: 20132535
Mol Biol Cell. 1996 Oct;7(10):1471-83
pubmed: 8898355
Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):15123-8
pubmed: 9844026
Comp Funct Genomics. 2004;5(5):403-18
pubmed: 18629171
Immunol Rev. 2004 Apr;198:72-82
pubmed: 15199955
Biol Lett. 2010 Jun 23;6(3):293-6
pubmed: 20106853
Cladistics. 2012 Oct;28(5):460-482
pubmed: 34844382
Immunol Lett. 2008 Mar 15;116(2):104-10
pubmed: 18243340
Biophys Chem. 2010 Oct;151(3):96-104
pubmed: 20615601
J Colloid Interface Sci. 1999 Jul 15;215(2):333-338
pubmed: 10419668
PLoS One. 2013;8(3):e59609
pubmed: 23555723
J Steroid Biochem Mol Biol. 1992 Dec;43(8):779-804
pubmed: 22217824
BMC Bioinformatics. 2011 Aug 04;12:323
pubmed: 21816040
Genome Biol. 2010;11(10):R106
pubmed: 20979621
Nat Commun. 2016 Oct 31;7:12849
pubmed: 27796300
Nat Rev Genet. 2009 Jan;10(1):57-63
pubmed: 19015660
J Lipid Res. 2007 Jun;48(6):1353-61
pubmed: 17339654
J Evol Biol. 2008 May;21(3):791-800
pubmed: 18312318
Bioinformatics. 2005 Sep 15;21(18):3674-6
pubmed: 16081474
J Lipid Res. 2005 Feb;46(2):297-306
pubmed: 15576844
Bioessays. 2007 May;29(5):452-64
pubmed: 17450595
Nat Rev Genet. 2011 Feb;12(2):87-98
pubmed: 21191423
Biochem Soc Trans. 2004 Dec;32(Pt 6):1006-7
pubmed: 15506948
Chembiochem. 2014 Feb 10;15(3):393-8
pubmed: 24442854
Biol Pharm Bull. 2007 Sep;30(9):1617-23
pubmed: 17827709
J Exp Zool A Ecol Genet Physiol. 2016 Aug;325(7):425-33
pubmed: 27460953
J Cell Biol. 2001 Jan 8;152(1):165-80
pubmed: 11149929
J Cell Physiol. 1985 Aug;124(2):313-21
pubmed: 3876343
Bioinformatics. 2005 Oct 1;21(19):3787-93
pubmed: 15817693
Nucleic Acids Res. 2008 Jan;36(Database issue):D480-4
pubmed: 18077471
Oncotarget. 2016 Dec 27;7(52):86536-86546
pubmed: 27852032
Dev Comp Immunol. 2009 Feb;33(2):171-5
pubmed: 18782588
Proc Natl Acad Sci U S A. 2007 Nov 13;104(46):18120-2
pubmed: 17984045
J Biol Chem. 2005 Oct 7;280(40):33756-65
pubmed: 16061477
Proc Natl Acad Sci U S A. 1990 Feb;87(3):909-13
pubmed: 2300584
Invest Ophthalmol Vis Sci. 2014 Sep 25;55(10):6722-7
pubmed: 25257056
Nat Rev Immunol. 2002 Oct;2(10):725-34
pubmed: 12360211
Nat Immunol. 2003 May;4(5):410-5
pubmed: 12719730
Angew Chem Int Ed Engl. 2008;47(41):7853-6
pubmed: 18781570
J Exp Biol. 2008 Aug;211(Pt 16):2707-11
pubmed: 18689424