Transcriptome analysis and microsatellite discovery in the blunt snout bream (Megalobrama amblycephala) after challenge with Aeromonas hydrophila

Tran, Ngoc Tuan; Gao, Zexia; Zhao, Honghao; Yi, Shaokui; Chen, Boxiang; Zhao, Ying‐Zheng; Lin, Li; Liu, Xueqin; Wang, Weimin

doi:10.1016/j.fsi.2015.01.034

Cited by 87 publications

(52 citation statements)

References 53 publications

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“…These results indicated that during S. dysgalactiae infection, both of innate immunity and adaptive immunity of fish play roles in the immune response to bacterial infection. Similar results were also observed in large yellow croaker [11] and blunt snout bream [31] challenged with Aeromonas hydrophila. Obtained these genes involved in different immune related pathway provided basis for understanding the molecular mechanism of soiny mullet and other mugilid species underlying the response to S. dysgalactiae infection.…”

Section: Identification Of Differentially Expressed Immune-related Gesupporting

confidence: 84%

Transcriptome analysis of soiny mullet (Liza haematocheila) spleen in response to Streptococcus dysgalactiae

Zhang

et al. 2016

Fish & Shellfish Immunology

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Section: Identification Of Differentially Expressed Immune-related Gesupporting

confidence: 84%

Transcriptome analysis of soiny mullet (Liza haematocheila) spleen in response to Streptococcus dysgalactiae

Zhang

et al. 2016

Fish & Shellfish Immunology

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“…Recently, after infection with pathogenic microorganisms Aeromonas hydrophila in zebrafish ( Danio rerio ) [17] and Vibrio anguillarum infection in sole ( Cynoglossus semilaevis ) [18], the transcriptome profile has been reported. Additional examples of transcriptome profiling analyses include the orange-spotted grouper ( Epinephelus coioides ) [19], blunt snout bream ( Megalobrama amblycephala ) [20], Chilean abalone Concholepas ( Gastropoda , Muricidae ) [21], grass carp ( Ctenopharyngodon idella ) [22], blowfish or fugu ( Takifugu rubripes ) [23], large yellow croaker ( Larimichthys crocea ) [24], and Nile tilapia ( Oreochromis niloticus ) [25,26]. Several studies have also reported transcriptome profiles for L. crocea in response to immune stimuli, pathogenic infection, or environmental stress [27,28,29].…”

Section: Introductionmentioning

confidence: 99%

De Novo Transcriptome Analysis of Differential Functional Gene Expression in Largemouth Bass (Micropterus salmoides) after Challenge with Nocardia seriolae

Byadgi

Chen

Wang

et al. 2016

IJMS

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Largemouth bass (Micropterus salmoides) are common hosts of an epizootic bacterial infection by Nocardia seriolae. We conducted transcriptome profiling of M. salmoides to understand the host immune response to N. seriolae infection, using the Illumina sequencing platform. De novo assembly of paired-end reads yielded 47,881 unigenes, the total length, average length, N50, and GC content of which were 49,734,288, 1038, 1983 bp, and 45.94%, respectively. Annotation was performed by comparison against non-redundant protein sequence (NR), non-redundant nucleotide (NT), Swiss-Prot, Clusters of Orthologous Groups (COG), Kyoto Encyclopaedia of Genes and Genomes (KEGG), Gene Ontology (GO), and Interpro databases, yielding 28,964 (NR: 60.49%), 36,686 (NT: 76.62%), 24,830 (Swissprot: 51.86%), 8913 (COG: 18.61%), 20,329 (KEGG: 42.46%), 835 (GO: 1.74%), and 22,194 (Interpro: 46.35%) unigenes. Additionally, 8913 unigenes were classified into 25 Clusters of Orthologous Groups (KOGs) categories, and 20,329 unigenes were assigned to 244 specific signalling pathways. RNA-Seq by Expectation Maximization (RSEM) and PossionDis were used to determine significantly differentially expressed genes (False Discovery Rate (FDR) < 0.05) and we found that 1384 were upregulated genes and 1542 were downregulated genes, and further confirmed their regulations using reverse transcription quantitative PCR (RT-qPCR). Altogether, these results provide information on immune mechanisms induced during bacterial infection in largemouth bass, which may facilitate the prevention of nocardiosis.

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“…Previous studies in our lab indicated that some immune-related genes are activated at an early stage of A. hydrophila infection in M. amblycephala [31,32,33,34,35]. Therefore, three small RNA libraries were analyzed from M. amblycephala liver at 0 (non-infection), 4, and 24 h post infection (poi) using the Illumina Hiseq 2000 sequencing platform.…”

Section: Resultsmentioning

confidence: 99%

Identification and Characterization of MicroRNAs in the Liver of Blunt Snout Bream (Megalobrama amblycephala) Infected by Aeromonas hydrophila

Cui

Wei

et al. 2016

IJMS

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MicroRNAs (miRNAs) are small RNA molecules that play key roles in regulation of various biological processes. In order to better understand the biological significance of miRNAs in the context of Aeromonas hydrophila infection in Megalobrama amblycephala, small RNA libraries obtained from fish liver at 0 (non-infection), 4, and 24 h post infection (poi) were sequenced using Illumina deep sequencing technology. A total of 11,244,207, 9,212,958, and 7,939,157 clean reads were obtained from these three RNA libraries, respectively. Bioinformatics analysis identified 171 conserved miRNAs and 62 putative novel miRNAs. The existence of ten randomly selected novel miRNAs was validated by RT-PCR. Pairwise comparison suggested that 61 and 44 miRNAs were differentially expressed at 4 and 24 h poi, respectively. Furthermore, the expression profiles of nine randomly selected miRNAs were validated by qRT-PCR. MicroRNA target prediction, gene ontology (GO) annotation, and Kyoto Encylopedia of Genes and Genomes (KEGG) analysis indicated that a variety of biological pathways could be affected by A. hydrophila infection. Additionally, transferrin (TF) and transferrin receptor (TFR) genes were confirmed to be direct targets of miR-375. These results will expand our knowledge of the role of miRNAs in the immune response of M. amblycephala to A. hydrophila infection, and facilitate the development of effective strategies against A. hydrophila infection in M. amblycephala.

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Transcriptome analysis and microsatellite discovery in the blunt snout bream (Megalobrama amblycephala) after challenge with Aeromonas hydrophila

Cited by 87 publications

References 53 publications

Transcriptome analysis of soiny mullet (Liza haematocheila) spleen in response to Streptococcus dysgalactiae

Transcriptome analysis of soiny mullet (Liza haematocheila) spleen in response to Streptococcus dysgalactiae

De Novo Transcriptome Analysis of Differential Functional Gene Expression in Largemouth Bass (Micropterus salmoides) after Challenge with Nocardia seriolae

Identification and Characterization of MicroRNAs in the Liver of Blunt Snout Bream (Megalobrama amblycephala) Infected by Aeromonas hydrophila

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