Author Details

Affiliations
1 Department of Animal Biotechnology, College of Veterinary Science and Animal Husbandry, Anand Agricultural University, Anand 388 001, IN

Source

Current Science, Vol 111, No 1 (2016), Pagination: 184-191

Abstract

The present study applies metagenomics to characterize the diversity and relative abundance of protozoa residing in the rumen of Indian Surti buffalo (Bubalus bubalis). To increase protozoa representation in the metagenome, protozoa enrichment was performed by density sedimentation and confirmed by quantitative real time PCR. The highly enriched metagenome sample was subjected to shotgun sequencing by Ion Torrent PGM which resulted in 10,303,375 reads total-ling 1.6 gigabases. The taxonomic profile obtained by comparison with SILVA SSU database showed pre-dominance of the class Litostomatea (99.78%) fol-lowed by Coccidia (0.10%) and Aconoidasida (0.06%). At the genus level Isotricha (48.06%) followed by Polyplastron (9.90%), Dasytricha (9.87%) and Eudiplodinium (7.47%) were predominant. The taxo-nomic assignment based on protein coding regions showed discrepancy with the SSU-based assignments, possibly due to the absence of most eukaryotic ge-nomes in public databases. According to the SEED subsystems annotation database, genes for protein me-tabolism were the most abundant followed by genes for RNA metabolism, regulation and cell signalling. The present study offers a preliminary snapshot of di-versity, functional potential and relative abundance of protozoa within the Indian Surti buffalo rumen and al-so expands our knowledge of these unicellular eukary-otes present in the rumen ecosystem.

Keywords

Buffalo Rumen, Metagenome, Protozoa Enrichment, Quantitative Real Time PCR, Shotgun Sequencing.

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Identification of Genetic Variants in PDC, RHO, PDE6A and PDE6B in Dogs with Progressive Retinal Atrophy

Abstract Views :348 | PDF Views:136

Authors

Dipal Y. Pandya ¹, Divyesh N. Kelawala ², Namrata V. Patel ¹, Tejas M. Shah ¹, Anand B. Patel ¹, Nidhi R. Parmar ¹, Bhaskar Reddy ¹, Deepak B. Patil ², Chaitanya G. Joshi ¹

Affiliations
1 Department of Animal Biotechnology, College of Veterinary Science and Animal Husbandry, Anand Agricultural University, Anand 388 001, IN
2 Department of Veterinary Surgery and Radiology, College of Veterinary Science and Animal Husbandry, Anand Agricultural University, Anand 388 001, IN

Source

Current Science, Vol 111, No 10 (2016), Pagination: 1640-1648

Abstract

The progressive retinal atrophy (PRA) is an inherited eye disease and characterized by progressive retinal degeneration which leads to impaired vision in dogs. Using targeted next generation sequencing of nine PRA cases and six controls, we have identified SNPs in PDC, PDE6A and PDE6B, which were not previously associated with PRA. The gene in which the highest mutations found was PDE6A (113 and 104 SNPs), followed by PDE6B, PDC and RHO in all dog breeds and Spitz-only respectively. Five SNPs identified in PDC gene of Spitz-only breed showed significant association with PRA. However, no pathogenetically relevant mutations were found in RHO gene for PRA. The SNP in PDE6B chr3: 91763017 (G/A) in Spitz-only breed, and PDE6A chr4: 5912574 (T/C) and PDC chr7: 19511750 (T/A) were associated with PRA in the breeds of dog studied. Our results show that PRA is genetically heterogeneous and is caused by multiple, distinct mutations.

Keywords

Genome-Wide Association, Next Generation Sequencing, Progressive Retinal Atrophy, Single Nucleotide Polymorphisms.

Full Text

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Genome-Wide Analysis of a Potent Functional Dairy Starter Bacterium Streptococcus thermophilus MTCC 5460:A Comprehensive Study of its Dairy Niche Adaptive Features

Abstract Views :471 | PDF Views:138

Authors

Jashbhai B. Prajapati ¹, Hemaxi P. Zala ¹, Neelam M. Nathani ², Manisha Sajnani ², Chaitanya G. Joshi ²

Affiliations
1 Department of Dairy Microbiology, Sheth MC College of Dairy Science, College of Veterinary Science and Animal Husbandry, Anand Agricultural University, Anand 388 001, IN
2 Department of Animal Biotechnology, College of Veterinary Science and Animal Husbandry, Anand Agricultural University, Anand 388 001, IN

Source

Current Science, Vol 113, No 12 (2017), Pagination: 2292-2297

Abstract

Genomic analysis of Streptococcus thermophilus strain MTCC 5460, an isolate from market dahi (curd), revealed particular gene features that contributed towards its adaptation to a dairy-specific niche. The genome comprising 1.6 Mb, encoding 1809 genes, revealed the presence of genes involved in lactose/galactose utilization; well-developed proteolytic system including cell envelop proteinases and several transporters; and bacteriocin synthesis and competence proteins involved in defence mechanism, which help prevent food spoilage. The genome comprised genes for stress resistance property of the strain, contributing to its gut endurance and gene encoding formation of aroma compounds. Unlike pathogenic streptococci, genes for virulence property were absent in the genome. Overall, the study revealed features within the genome that enabled the organism to survive in a gastric environment and assisted in its interaction with the host microbiota and mucosa, thus, validating the strain as a potent functional dairy starter and a promising candidate for potential probiotic applications.

Keywords

Dairy Starter, Genome, MTCC 5460, Probiotics.

Full Text

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