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Gupta, M. D.

Publications and source records attributed to Gupta, M. D..

2 recordsLinked to original sources

Irrational groups: decoy placement, not group size, shapes collective shoal-size preference in adult zebrafish

Group living often improves decision accuracy in animals, yet whether increasing group size buffers against context-dependent biases remains unexplored. One such bias is the decoy effect, where the presence of a third option shifts preferences between two alternatives. Here, we tested whether introducing a decoy shoal influences collective preference for the larger female shoal in adult male zebrafish (Danio rerio), and whether the strength of this effect depends on group size. Groups of two, three, or four males were presented with female shoals under two choice contexts: a dichotomous contrast (four vs. two fish) and a trichotomous contrast including an additional alternative of one, three, or five fish. The order of presentation (dichotomous-first or trichotomous-first) was counterbalanced, and multi-animal tracking was used to quantify group-level shoal-size preference (time spent near shoals), inter-individual distance (IID), polarization, and swimming speed. In the dichotomous-first order, across all group sizes, subject shoals consistently showed a baseline preference for the larger shoal. Adding a third decoy option altered this preference only when the decoy was extreme (one or five fish relative to the 4 vs. 2 alternatives), reducing relative preference toward indifference. Group IIDs were associated with context-dependent shifts in relative preference in the dichotomous-first order, whereas polarization and swimming speed were not. In the trichotomous-first order, groups showed no preference for the larger shoal, with or without a decoy shoal. Our results demonstrate that context-dependent biases, shape collective shoal choice, with effects driven by choice structure and order of presentation of options than by group size.

animal behavior and cognition↗

Whole genome sequencing of Red Chittagong Cattle (RCC) cattle and insight into genetic variants in candidate genes for disease resistance

Detection of genome-wide genetic variation is one of the primary goals in bovine genomics. Genomes of several cattle breeds have been sequenced so far to understand the genetic variation associated with important phenotypes. Red Chittagong Cattle (RCC) is a locally adopted and disease-resistant indicine cattle breed in Bangladesh. In this study, we describe the first genome sequence of the RCC breed and in silico analyses of identified functional variants. Deep sequencing of a RCC bull genome on the NanoBall sequencing platform generated approximately 110 Gb paired-end data, resulting in 31X of genome coverage. Quality filtering retained 360,711,803 paired-end reads. Of the filtered reads, 99.8% were mapped to the bovine reference genome (ARSUCD1.2). A total of 17. 8 million Single nucleotide variants (SNVs) and 2.1 insertions and deletions (INDELs) were identified in the RCC genome. Ts/Tv ratio was computed and found to be 2.21. In total, 332 4621 variants were novel compared with dbSNP data (NCBI dbSNP bovine build 150). Functional annotation identified 54961 SNVs exonic regions, 63.75% of which were synonymous, whereas 30.42% were non-synonymous changes. The percentage of coding INDELs was 0.25% (Frameshift deletion 0.19% and Frameshift insertion 0.06%). We identified 120 variants in 26 candidates for five diseases-foot and mouth disease (FMD), Mastitis, Parasite, para-tuberculosis, and tick. Of the 120 variants, 50 were non-synonymous / frameshift (NS/FS), while 70 were synonymous/non-frameshift (SS/NFS). The identified catalog of genomic variants in RCC may establish a paradigm for cattle research in Bangladesh by filling the void and providing a database for genome-wide variation for future functional studies in RCC.

genomics↗