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Biology subjects

Dahanukar, N.

Publications and source records attributed to Dahanukar, N..

5 recordsLinked to original sources

Evolutionary genomics of host-transposon conflict, multilevel selection, and Red Queen dynamics

Transposable elements (TE) jump from one genomic locus to another. Since increase in their copy number is a metabolic burden for the host, TE are considered as genomic parasites. Although host-TE co-existence is regarded as an evolutionary arms race, the hypothesis is not extensively tested especially using evolutionary genomics. We provide a hypothesis testing framework to understand the distribution of TE in genic regions of the host genome, variation in the regulation of TE by host, and effect of these two factors on host-TE co-evolutionary dynamics. We test our hypothesis by understanding the distributions of potentially active TEs in the genome of 78 teleost fishes, representing major families and orders within the clade. Our analysis reveals coevolutionary arms race predicted by the Red Queen dynamics.

evolutionary biology↗

Phylogenomics of Cypriniformes, the most diverse order of freshwater fishes: consensus, challenges and limitations

Cypriniformes, the most species-rich order of freshwater fishes ([~]5,000 species), represents a key lineage for understanding vertebrate diversification in freshwater ecosystems. This clade includes several highly miniaturized and understudied lineages whose phylogenetic placements have long remained contentious. Here, we present the first phylogenomic analysis of Cypriniformes with complete family-level representation and broad genus-level coverage, encompassing 316 species comprising approximately 30% of all described genera. Our dataset integrates 257 newly assembled genomes with publicly available resources and analyzes multiple sets of genome-wide markers using both concatenation-based and coalescent-aware approaches. The general concordance among analytical frameworks indicates that the backbone topology of Cypriniformes is now established, allowing clear identification between well-supported clades and regions of persistent conflict. Our results strengthen the evolutionary relationships of several miniaturized lineages, while identifying recalcitrant relationships shaped by both biological processes and model artefacts that can yield superficially similar patterns of phylogenetic conflict. Our study substantially expands genomic representation and establishes a phylogenomic foundation for future comparative, developmental, and evolutionary research in this freshwater radiation.

evolutionary biology↗

Sniffer beetles: Odor imaging reveals congeneric herbivores identify their congeneric hostplants based on differential olfactory perceptions

Hostplant location and conspecific aggregation on the hostplant are the key behaviors of several herbivore insect species. The cues used by insects for host identification and aggregation initiation have been researched mainly using a single hostplant species. The chemical repertoire of plants, including volatile and non-volatile secondary metabolites, is critical in mediating these processes. In natural ecosystems, often several closely related plant species co-occur. Despite these related plant species similar chemical repertoires, insects proficiently locate their hosts. How they resolve such complex chemical cues is understudied. To study the basis of such resolution, we used five commonly co-occurring Ipomoea spp. as hostplants and four Chiridopsis spp. (beetles) as their herbivores. In this wild sympatric system from the Western Ghats of India, monophagous, biphagous, and oligophagous Chiridopsis spp. are specialist herbivores of different Ipomoea species. We studied the chemistry of these beetles stringent host-specificity by determining the roles of chemical cues in hostplant location and aggregation. We analyzed beetles hostplant preferences vis-a-vis hostplant volatile blends. We found plant volatiles as the primary hostplant identification cues. Using GC-MS/-FID and SPME headspace analyses, we characterized odor blends of the five Ipomoea spp. and identified putative attractants and repellents for each Chiridopsis sp. using multivariate statistics. We determined their attractant or deterrent natures using behavioral assays and ascertained their perception by the antennal olfactory receptors using electroantennography. Beetles responded to these compounds only when they were delivered via their hostplant odor blends. Beetles did not respond when these compounds were given singularly or via non-host odor blends. We infer that these semiochemicals attractant, repellent, or neutral characters are associated with the hostplants volatile blend-the matrix. We integrated the multi-source data to visualize this in-flight odor perception by representing odor as color variations or odor images. Odor imaging revealed beetles differential olfactory perception of different hostplants and indicated how a beetle distinguishes between two closely-related plant species. Additionally, it showed a different olfactory perception of the same hostplant by different closely-related beetle species, suggesting they have evolved to recognize the same odor using different components. Our work demonstrates that the hostplants odor blend matrix is crucial; beetles do not respond to attractants/ repellents without it. Together, the closely-related plant species form an ideal system to understand how insects perceive subtle differences between hosts and non-host cues in nature. This investigation also underlines the relevance of studying entire odor blends over individual compounds.

ecology↗

The identity and distribution of Bhavania annandalei Hora 1920 (Cypriniformes: Balitoridae), a hillstream loach endemic to the Western Ghats of India

Bhavania annandalei Hora 1920, is resurrected from the synonymy of B. australis (Jerdon 1849) based on examination of freshly collected topotypic specimens. The two species can be distinguished by a combination of morphological, morphometric and meristic characters, and by genetic distance using mitochondrial cox1 gene. The distribution of B. annandalei is restricted to the river systems draining the Agasthyamalai hills, below the Shencottah Gap in southern Western Ghats.Competing Interest StatementThe authors have declared no competing interest.View Full Text

zoology↗

Phylogenetic diversity and activity screening of cultivable actinobacteria isolated from marine sponges and associated environments from the western coast of India

Phylogenetic diversity of cultivable actinobacteria isolated from sponges (Haliclona spp.) and associated environments of intertidal zones, along the northern parts of west coast of India, were studied using 16S rRNA gene sequences. A subset of actinobacteria were screened for three activities, namely predatory behavior, antibacterial activity and enzyme inhibition. We recovered 237 isolates of actinobacteria belonging to 19 families and 28 genera, which could be attributed to 95 putative species using maximum likelihood partition and 100 putative species using Bayesian partition in Poisson Tree Processes. Although the trends in the discovery of actinobacterial genera isolated from sponges was consistent with previous studies from different study areas, we provide first report of nine actinobacterial species from sponges. We observed widespread non-obligate epibiotic predatory behavior in eight actinobacterial genera and we provide first report of predatory activity in Brevibacterium, Glutamicibacter, Micromonospora, Nocardiopsis, Rhodococcus and Rothia. Sponge associated actinobacteria showed significantly more predatory behavior than environmental isolates. While antibacterial activity by actinobacterial isolates mainly affected Gram-positive target bacteria with little to no effect on Gram-negative bacteria, predation targeted both Gram-positive and Gram-negative prey with equal propensity. Actinobacterial isolates from both sponge and associated environment produced inhibitors of serine proteases and angiotensin converting enzyme. Predatory behavior was strongly associated with inhibition of trypsin and chymotrypsin. Our study suggests that sponge and associated environment of western coast of India are rich in actinobacterial diversity with widespread predatory activity, antibacterial activity and production of enzyme inhibitors. Understanding diversity and associations among various actinobacterial activities, with each other and the source of isolation, can provide new insights in marine microbial ecology and provide opportunities to isolate novel therapeutic agents.

microbiology↗