Dataset Information

Transcriptomic comparison of primary bovine horn core carcinoma culture and parental tissue at early stage.

ABSTRACT:

Aim

Squamous cell carcinoma or SCC of horn in bovines (bovine horn core carcinoma) frequently observed in Bos indicus affecting almost 1% of cattle population. Freshly isolated primary epithelial cells may be closely related to the malignant epithelial cells of the tumor. Comparison of gene expression in between horn's SCC tissue and its early passage primary culture using next generation sequencing was the aim of this study.

Materials and methods

Whole transcriptome sequencing of horn's SCC tissue and its early passage cells using Ion Torrent PGM were done. Comparative expression and analysis of different genes and pathways related to cancer and biological processes associated with malignancy, proliferating capacity, differentiation, apoptosis, senescence, adhesion, cohesion, migration, invasion, angiogenesis, and metabolic pathways were identified.

Results

Up-regulated genes in SCC of horn's early passage cells were involved in transporter activity, catalytic activity, nucleic acid binding transcription factor activity, biogenesis, cellular processes, biological regulation and localization and the down-regulated genes mainly were involved in focal adhesion, extracellular matrix receptor interaction and spliceosome activity.

Conclusion

The experiment revealed similar transcriptomic nature of horn's SCC tissue and its early passage cells.

SUBMITTER: Shil S

PROVIDER: S-EPMC5301178 | biostudies-literature | 2017 Jan

REPOSITORIES: biostudies-literature

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Publications

Transcriptomic comparison of primary bovine horn core carcinoma culture and parental tissue at early stage.

Shil Sharadindu S Joshi R S RS Joshi C G CG Patel A K AK Shah Ravi K RK Patel Namrata N Jakhesara Subhash J SJ Kundu Sumana S Reddy Bhaskar B Koringa P G PG Rank D N DN

Veterinary world 20170113 1

<h4>Aim</h4>Squamous cell carcinoma or SCC of horn in bovines (bovine horn core carcinoma) frequently observed in <i>Bos indicus</i> affecting almost 1% of cattle population. Freshly isolated primary epithelial cells may be closely related to the malignant epithelial cells of the tumor. Comparison of gene expression in between horn's SCC tissue and its early passage primary culture using next generation sequencing was the aim of this study.<h4>Materials and methods</h4>Whole transcriptome sequen ...[more]

PMID: 28246447

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Project description:BackgroundLungworms of the genus Dictyocaulus (family Dictyocaulidae) are parasitic nematodes of major economic importance. They cause pathological effects and clinical disease in various ruminant hosts, particularly in young animals. Dictyocaulus viviparus, called the bovine lungworm, is a major pathogen of cattle, with severe infections being fatal. In this study, we provide first insights into the transcriptome of the adult stage of D. viviparus through the analysis of expressed sequence tags (ESTs).ResultsUsing our EST analysis pipeline, we estimate that the present dataset of 4436 ESTs is derived from 2258 genes based on cluster and comparative genomic analyses of the ESTs. Of the 2258 representative ESTs, 1159 (51.3%) had homologues in the free-living nematode C. elegans, 1174 (51.9%) in parasitic nematodes, 827 (36.6%) in organisms other than nematodes, and 863 (38%) had no significant match to any sequence in the current databases. Of the C. elegans homologues, 569 had observed 'non-wildtype' RNAi phenotypes, including embryonic lethality, maternal sterility, sterility in progeny, larval arrest and slow growth. We could functionally classify 776 (35%) sequences using the Gene Ontologies (GO) and established pathway associations to 696 (31%) sequences in Kyoto Encyclopedia of Genes and Genomes (KEGG). In addition, we predicted 85 secreted proteins which could represent potential candidates for developing novel anthelmintics or vaccines.ConclusionThe bioinformatic analyses of ESTs data for D. viviparus has elucidated sets of relatively conserved and potentially novel genes. The genes discovered in this study should assist research toward a better understanding of the basic molecular biology of D. viviparus, which could lead, in the longer term, to novel intervention strategies. The characterization of the D. viviparus transcriptome also provides a foundation for whole genome sequence analysis and future comparative transcriptomic analyses.

Dataset Information

Transcriptomic comparison of primary bovine horn core carcinoma culture and parental tissue at early stage.

Aim

Materials and methods

Results

Conclusion

Publications

Transcriptomic comparison of primary bovine horn core carcinoma culture and parental tissue at early stage.

Similar Datasets

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