Molecular tools to support metabolic and immune function research in the guinea fowl (Numida meleagris)
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BACKGROUND: Guinea fowl (Numidia meleagris) production as an alternative source of meat and poultry has shown potential for economic viability. However, there has been little progress in characterizing the transcriptome of the guinea fowl. In this study RNA-sequencing and de novo transcriptome assembly of several Guinea fowl tissues (pancreas, hypothalamus, liver, bone marrow and bursa) which play key roles in regulating feed intake, satiety, and immune function was performed using Illumina's Hi-Seq 2000. RESULTS: 74 million sequences were generated and assembled into 96,492 contigs using the Trinity software suite. Over 39,000 of these transcripts were found to have in silico translated protein sequences that are homologous to chicken protein sequences. Gene ontology analysis uncovered 416 transcripts with metabolic functions and 703 with immune function. CONCLUSION: The transcriptome information presented here will support the development of molecular approaches to improve production efficiency of the guinea fowl and other avian species.
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Of 2.05 Gb of RNA-seq data, 92.28% and 88.48% could be mapped to the HGFv1 and NumMel1.0 assemblies, respectively.
“In addition, 2.05 Gb of RNA-seq data obtained from pancreas, hypothalamus, bone marrow, and bursa (Darris et al. 2015) were mapped onto the assemblies of HGFv1 and NumMel1.0, respectively. Overall, 92.28% and 88.48% of the RNA-seq reads could be mapped to the two assemblies, respectively.”
From Genomic Analyses Unveil Helmeted Guinea Fowl (<i>Numida meleagris</i>) Domestication in West Africa (2021) · cites this paper as Darris et al. 2015
The assembly quality of HGFv1 was evaluated with BUSCO v3, LAI, and RNA-seq reads mapping.
“The assembly quality of HGFv1 was evaluated with BUSCO v3 (Waterhouse et al. 2018), LAI (LTR assembly index) (Ou et al. 2018), and RNA-seq reads mapping (Darris et al. 2015).”
From Genomic Analyses Unveil Helmeted Guinea Fowl (<i>Numida meleagris</i>) Domestication in West Africa (2021) · cites this paper as Darris et al. 2015
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Research works printed but not linked: 1
- [1]Nahashon SN, Amenyenu A, Muhammad S, Adefope N, and Wright D: Assessment of awareness and constraints in production of guinea fowl in Tennessee and other parts of the United States. 2004. Southern Animal Science Association Abstracts pp. 7.
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Genomic Analyses Unveil Helmeted Guinea Fowl (<i>Numida meleagris</i>) Domestication in West Africa
Shen, Q.-K., Peng, M.-S., Adeola, A. C., Kui, L., Duan, S., Miao, Y.-W., Eltayeb, N. M., Lichoti, J. K., Otecko, N. O., Strillacci, M. G., et al. (2021) · Genome Biology and Evolution · doi:10.1093/gbe/evab090 · Cited by 13 · see citing works
- Authors
- Darris, C. E., Tyus, J. E., Kelley, G., Ropelewski, A. J., Nicholas, H. B., Wang, X., & Nahashon, S.
- Affiliations
- Tennessee State University (US)
- Pittsburgh Supercomputing Center (US)
- Corresponding author
- Nahashon, Samuel
- Venue
- BMC Genomics
- Published
- 2015-05-07
- Volume
- 16
- Issue
- 1
- Pages
- 358-358
- ISSN
- 1471-2164 (ISSN-L)
- PMC
- PMC4432510
- OpenAlex
- W1510271922
- Cited by
- 3
- References
- 26
- Citations by year
- 2021: 1 · 2020: 1 · 2018: 1
- FWCI
- 0.14
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- BMC Genomics (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- National Science Foundation (1053575)
- National Institutes of Health (ACI-1053575)
- National Institute of General Medical Sciences (T36GM095335)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Animal Nutrition and Physiology
- Keywords
- guinea fowl, transcriptome, de novo transcriptome assembly, pancreas, hypothalamus, liver, bone marrow, Bursa, metabolic function, immune function, feed intake, satiety
- MeSH terms
- Animals, Organ Specificity, Sequence Homology, Nucleic Acid, Software, Sequence Analysis, RNA, Gene Expression Profiling, Databases, Genetic, Galliformes, Molecular Sequence Annotation
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