Genotyping-by-sequencing (GBS) for Single Nucleotide Polymorphism (SNP) discovery in guinea pigs (Cavia porcellus L) from the Peruvian Andes
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB59832 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR10915000_1.fastq.gz | Fastqsanger.gz | |||
| ERR10915000_2.fastq.gz | Fastqsanger.gz | |||
| ERR10915001_1.fastq.gz | Fastqsanger.gz | |||
| ERR10915001_2.fastq.gz | Fastqsanger.gz | |||
| ERR10915002_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 80 |
Similar Datasets
Project description:Guinea pigs (Cavia porcellus) have been reared for centuries in the Andean region for ceremonial purposes or as the main ingredient of traditional foods. The animals are kept in close proximity of households and interact closely with humans; this also occurs in western countries, where guinea pigs are considered pets. Even though it is acknowledged that domestic animals carry pathogenic yeasts in their tissues and organs that can cause human diseases, almost nothing is known in the case of guinea pigs. In this work we used traditional microbiological approaches and molecular biology techniques to isolate, identify, and characterize potentially zoonotic yeasts colonizing the nasal duct of guinea pigs raised as livestock in Southern Ecuador (Cañar Province). Our results show that 44% of the 100 animals studied were colonized in their nasal mucosa by at least eleven yeast species, belonging to eight genera: Wickerhamomyces, Diutina, Meyerozyma, Candida, Pichia, Rhodotorula, Galactomyces, and Cryptococcus. Noticeably, several isolates were insensitive toward several antifungal drugs of therapeutic use, including fluconazole, voriconazole, itraconazole, and caspofungin. Together, our results emphasize the threat posed by these potentially zoonotic yeasts to the farmers, their families, the final consumers, and, in general, to public and animal health.
| S-EPMC9774381 | biostudies-literature
Project description:In science, the guinea pig is known as one of the gold standards for modeling human disease. It is especially important as a molecular and cellular biology model for studying the human immune system, as its immunological genes are more similar to human genes than are those of mice. The utility of the guinea pig as a model organism can be further enhanced by further characterization of the genes encoding components of the immune system. Here, we report the genomic organization of the guinea pig immunoglobulin (Ig) heavy and light chain genes. The guinea pig IgH locus is located in genomic scaffolds 54 and 75, and spans approximately 6,480 kb. 507 V(H) segments (94 potentially functional genes and 413 pseudogenes), 41 D(H) segments, six J(H) segments, four constant region genes (?, ?, ?, and ?), and one reverse ? remnant fragment were identified within the two scaffolds. Many V(H) pseudogenes were found within the guinea pig, and likely constituted a potential donor pool for gene conversion during evolution. The Ig? locus mapped to a 4,029 kb region of scaffold 37 and 24 is composed of 349 V(?) (111 potentially functional genes and 238 pseudogenes), three J(?) and one C(?) genes. The Ig? locus spans 1,642 kb in scaffold 4 and consists of 142 V(?) (58 potentially functional genes and 84 pseudogenes) and 11 J(?) -C(?) clusters. Phylogenetic analysis suggested the guinea pig's large germline V(H) gene segments appear to form limited gene families. Therefore, this species may generate antibody diversity via a gene conversion-like mechanism associated with its pseudogene reserves.
| S-EPMC3382241 | biostudies-literature
Project description:Prolactin (PRL) is a multifunctional hormone with prominent roles in regulating growth and reproduction. The guinea pig (Cavia porcellus) has been extensively used in endocrine and reproduction research. Thus far, the PRL cDNA and protein have not been isolated from the guinea pig. In the present study, we used information derived from the public guinea pig genome database as a tool for identifying guinea pig PRL and PRL-related proteins. Guinea pig PRL exhibits prominent nucleotide and amino acid sequence differences when compared with PRLs of other eutherian mammals. In contrast, guinea pig GH is highly conserved. Expression of PRL and GH in the guinea pig is prominent in the anterior pituitary, similar to known expression patterns of PRL and GH for other species. Two additional guinea pig cDNAs were identified and termed PRL-related proteins (PRLRP1, PRLRP2). They exhibited a more distant relationship to PRL and their expression was restricted to the placenta. Recombinant guinea pig PRL protein was generated and shown to be biologically active in the PRL-responsive Nb2 lymphoma cell bioassay. In contrast, recombinant guinea pig PRLRP1 protein did not exhibit PRL-like bioactivity. In summary, we have developed a new set of research tools for investigating the biology of the PRL family in an important animal model, the guinea pig.
| S-EPMC2940522 | biostudies-literature
Project description:Cavia porcellus breed:Hartley Guinea Pigs Transcriptome or Gene expression
| PRJNA1007737 | ENA
Project description:The DNA methylation landscape of enhancers in the guinea pig hippocampus
| PRJNA385487 | ENA
Project description:RNA-seq of ten guinea pig tissues from breeders and non-breeders
| PRJNA385822 | ENA
Project description:V4 region of 16S rRNA gene sequence reads of guinea pig cecum microbiot
| PRJNA955801 | ENA
Project description:V4 region of 16S rRNA gene sequence reads of guinea pig cecum microbiota
| PRJNA956576 | ENA
Project description:Gene expression pattern after insertion of dexamethasone-eluting electrode into the guinea pig cochlea.
| PRJNA233598 | ENA