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Articles by Sarwar Azam
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The picornavirus foot-and-mouth disease virus (FMDV) is responsible for one of the most significant diseases of livestock, leading to large economic losses due to reduced productivity and trade embargoes for areas not certified as disease-free. The picornavirus non-structural protein 3A is involved in replication of the viral RNA genome and is implicated in host tropism of several picornaviruses.
A high-quality telomere-to-telomere lumpy skin disease virus genome assembly
Article metrics loading... /content/journal/jgv/10.1099/jgv.0.002348 Metrics Download as PowerPoint /deliver/fulltext/jgv/107/10/jgv002348.html?itemId=/content/journal/jgv/10.1099/jgv.0.002348&mimeType=html&fmt=ahah References Sereika M, Kirkegaard RH, Karst SM, Michaelsen TY, Sørensen EA et al. Oxford Nanopore R10.4 long-read sequencing enables the generation of near-finished bacterial genomes from pure cultures and metagenomes without short-read or reference polishing.
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Rinderpest, a once much feared livestock disease, was declared eradicated in 2011, however virus-containing material is still held in laboratories worldwide. Prior to the destruction of our institute’s stocks, we determined the full genome sequence of the distinct samples of rinderpest virus (RPV) in our repository. This data would decipher the historical epidemiology of RPV and allow for recovery of the virus should the need arise.
Constructing a draft Indian cattle pangenome using short-read sequencing - Communications Biology
Abstract Indian desi cattle, known for their adaptability and phenotypic diversity, represent a valuable genetic resource. However, a single reference genome often fails to capture the full extent of their genetic variation. To address this, we construct a pangenome for desi cattle by identifying and characterizing non-reference novel sequences (NRNS). We sequence 68 genomes from seven breeds, generating 48.35 billion short reads.
Genome assemblies of Indian desi cattle reveals hotspots of rearrangements and immune-related genetic diversity
Abstract India, home to the world's largest cattle population, hosts native dairy breeds essential to its agricultural economy because of their adaptability and resilience. This study characterizes the genomes of five prominent breeds Gir, Kankrej, Red Sindhi, Sahiwal and Tharparkar, highlighting their unique genomic characteristics. The de novo assemblies ranged from 2.70-2.78 Gb in size, with 90% of the genomes assembled in just 56 to 1,663 scaffolds.
Constructing a Draft Indian Cattle Pangenome Using Short-Read Sequencing
Abstract Background: Indian cattle known as desi cattle, renowned for their adaptability to harsh environments and diverse phenotypic traits, represent a valuable genetic resource. While reference genome assemblies have been instrumental in advancing cattle genomics, they often fail to capture the full spectrum of genetic variation present within diverse populations.
Advancing the Indian Cattle Pangenome: Characterizing Non-Reference Sequences in Bos indicus
Abstract Background: India, with the world's largest cattle population and more than 50 registered breeds of Bos indicus, stands as a vital reservoir of genetic diversity. However, the abundant diversity among Indian cattle breeds highlights the inadequacy of a single reference sequence to represent the entire genomic content of desi cattle.
Non-Synonymous Variants in Fat QTL Genes among High- and Low-Milk-Yielding Indigenous Breeds
Abstract : Highlights What are the main findings? Differentially expressed milk fat QTL genes explored with whole genome se-quencing for variant analysis. Identified non-synonymous SNPs for hub and bottleneck QTL genes associated with milk fat traits. What is the implication of the main finding? Identified differential pattern(s) of SNPs in fat QTLs between high and low milk yield breeds. Impact of the identified SNP pattern(s) on milk fat traits can be further explored.
Leptospira surface adhesin (Lsa21) induces Toll like receptor 2 and 4 mediated inflammatory responses in macrophages
Leptospira causes persistent infections in humans by evading the TLR mediated host immune response through multiple mechanisms such as limiting the expression or antigenic variation of its membrane proteins, their access to antibodies and modifying its LPS14,16,27. Outer membrane/surface proteins play an important role in the virulence of Leptospira28.
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