Chinnamani PrasannaKumar

Chinnamani PrasannaKumar
National College, Tiruchirappali · Department of Biotechnology and Microbiology

Doctor of Philosophy
Proficient in deciphering biological information from DNA sequences of an individuals and/or ecosystems.

About

107
Publications
13,568
Reads
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170
Citations
Introduction
Chinnamani PrasannaKumar is a specialist in marine genomics and bioinformatics, with extensive experience in the use of technologies for DNA sequencing to better understand the marine environment and its components. His area of expertise includes DNA barcoding (molecular taxonomic tool) with a wide spectrum of marine taxon from microorganisms to mega-flora / fauna. He was an INSPIRE Fellow in India (2010-2014) and a National Postdoctoral Fellow in China (2014-2017).
Additional affiliations
August 2018 - January 2021
National Institute of Oceanography
Position
  • Project Associate
Description
  • 1. Marine Biodiversity Informatics 2. DNA Barcoding Marine Flora and Fauna 3. Developing Automated Marine Species Identification System
May 2014 - December 2017
Xiamen University
Position
  • PostDoc Position
Description
  • 1. Measuring Marine Nitrification Rates in Future Ocean Conditions 2. DNA Barcoding Marine Flora and Fauna 3. Cruise Participation [South China Sea & Pacific Ocean]
Education
January 2010 - November 2013
Annamalai University
Field of study
  • Marie Microbiology
August 2007 - November 2009
Annamalai University
Field of study
  • Marie Microbiology
May 2005 - August 2007
Annamalai University
Field of study
  • Marine Microbiology

Publications

Publications (107)
Technical Report
Full-text available
Two mushroom species viz, Agaricus bisporus and Pleurotus ostreatus, whose thermo stability was increased using CRISPR/Cas-mediated genome editing protocols were used for mass commercial production. These genetically transformed species could withstand up to 29 Centigrade, thereby lowering maintenance cost by 3 times.
Negative Results
Full-text available
As a part of academic practical (Lab in Microbial Genetics and Molecular Biology) requiring the preparation of high quality DNA, DNA isolations were attempted from microorganisms. All reagents were prepared from scratch and no commercially available kits were used. Distilled water for the reagent preparations were generated from the in-house distil...
Experiment Findings
Full-text available
Objective is to isolate, characterize and explore the dye decolorizing potential of Fusarium solani from decaying tomato.
Technical Report
Full-text available
To isolate and characterize a bacterial pure culture from ear wax (cerumen).
Preprint
Full-text available
High density poly-ethane cans were used to culture methanogenic archaea from cow dung samples. This approach excludes usages of compressors to create anaerobic condition and special glass apparatus previous used to culture methanogenic Archaea. For the first time the methanogens in cow-dung was mixed cultured with aid of nutrient broth using high d...
Technical Report
Full-text available
Objective is to isolate and characterize a bacterium from the fermenter cooling system water.
Technical Report
Full-text available
Objective is to isolate and characterize a bacterial pure culture from human external auditory canal.
Preprint
Full-text available
Understanding biota distribution in oxygen minimum zone can help guide further exploration of potentially unusual habitats. The present study explores the culturable bacterial fractions in the oxygen minimum zone sediments of Bay of Bengal. The 16S rRNA gene sequences of 30 morphologically distinct bacterial colonies isolated form oxygen minimum zo...
Technical Report
Full-text available
Objective is to isolate and characterize bacteria from garden soil.
Technical Report
Full-text available
Objective is to isolate and characterize a bacterial pure culture from human scalp.
Technical Report
Full-text available
Objective is to isolate and characterize a bacteria from the buccal cavity.
Technical Report
Full-text available
Objective is to isolate and characterize a bacterium from the lenses of the spectacles.
Technical Report
Full-text available
A bacterium Staphylococcus saprophyticus was isolated and characterized.
Technical Report
Full-text available
Experiment tries to answer if sealed Petri plates influences bacterial growth.
Experiment Findings
Full-text available
To prepare and characterize a bacterial pure culture from rabbit feces
Research Proposal
1) To collect and document the existing biodiversity in the intertidal rocky pools of Goa coast and maintain the samples as museum reference specimens. 2) To isolate DNA, PCR amplify and sequence the DNA barcode region of the rocky pool flora/ fauna and maintain a DNA library for the collected specimens. 3) To create, integrate and maintain a DNA...
Research Proposal
Full-text available
1.Addressing the gaps and stitching the different clauses into an inclusive, functional and a dedicated marine/coastal policy recommendation. 2.As climate change is emerging as one of the greatest environmental challenges of the twenty-first century, which is further intensified due to population growth, economic development and increased demand on...
Preprint
Full-text available
Oxygen minimum zones are results of oxygen consumption exceeding the oxygen availability in stratified water columns of the marine environment. We compared the ammonia monooxygenase subunit A (amoA) gene abundance and the diversity of ammonia-oxidising archaea (AOA) in the Arabian Sea (AS) with those of the Bay of Bengal (BoB). Three primer pairs t...
Article
Full-text available
The red palm weevil, Rhynchophorusferrugineus (Olivier 1790) caused a high lose in date palm in gulf region especially in Saudi Arabia. Previous estimations of palm weevil haplotype diversity in Saudi Arabia was not satisfactory because of choice of marker and small sampling area. Assessing haplotype diversity using COI gene was found ineffective....
Technical Report
Full-text available
As per the reports of the media and the city officials, it was rain water that drowned the national college campus in the recent downpour (26th Nov, 2021). The department of biotechnology and microbiology of NCT, undertook a scientific investigation and presents the facts here.
Article
Full-text available
Copepods are the dominant members of the zooplankton community and the most abundant form of life. It is imperative to obtain insights into the copepod-associated bacteriobiomes (CAB) in order to identify specific bacterial taxa associated within a copepod, and to understand how they vary between different copepods. Analysing the potential genes wi...
Article
Due to their large size, bathynomids (Crustacea, Isopoda, Cirolanidae), belonging to the “supergiant group” of isopods, have long been prominent. The distribution of giant isopods from inshore to deep-sea environments has been reported. There was a shortage of molecular taxonomic data for these species. While DNA barcoding has proven to accelerate...
Preprint
Full-text available
Identification and quantification of fish diet diversity was the first step in understanding the food web dynamics and ecosystem energetics, where the contribution of DNA barcoding technique has been important. We used DNA barcoding to identify the stomach contents of a euryhaline, benthophagous catfish Ariius maculatus. From 40 catfish stomach ite...
Preprint
Full-text available
Globally, at the rate of 1-2 percent per annum, mangrove coverings are disappearing and 35 percent have been lost in the last 20 years due to changes in climate and human activities. No mangrove-associated crabs were found when the mangroves were artificially transplanted 25 years ago in the Vellar estuary. This mangrove ecosystem was sampled for b...
Preprint
Full-text available
Strengthening the DNA barcode database is important for a species level identification, which was lacking for seaweeds. We made an effort to collect and barcode seaweeds occurring along Southeast coast of India. We barcoded 31 seaweeds species belonging to 21 genera, 14 family, 12 order of 3 phyla (viz., Chlorophyta, Phaeophyta and Rhodophyta). We...
Preprint
Full-text available
For the yeast population and diversity marine habitats are the least explored niches. The aim of the present study is to create a comprehensive DNA barcode library for marine derived yeast species. As we sequenced the ITS gene for 1017 isolates belonging to 157 marine derived yeast species in 55 genera, 28 families, 14 orders, 8 classes of 2 Phyla...
Preprint
Full-text available
Environmental DNA barcoding technology is gaining innovative applications when monitoring diverse tropics of marine environment. Since previous studies have shown that most marine eDNA sequences cannot be assigned to any species and in most cases to any phyla, since only 15 percent of the animal species is barcoded and accessible in reference libra...
Data
Results of BOLD identification search engine for seaweed barcodes
Experiment Findings
Full-text available
rbcL sequencing and analysis
Experiment Findings
Full-text available
COI sequencing and analysis
Research Proposal
Full-text available
Aquatic eDNA is a representative of local populations at the sampling sites, thus avoiding the need to sample and analyze individual organisms. I have used DNA barcoding to identify and create DNA barcode databases for Indian marine fin fishes and shell fishes occurring in open waters and from deep sea ecosystem which have provided data for precise...
Method
Full-text available
DNA meta-barcoding pipeline optimized for diverse range of marine environment (from surface to deep-sea)
Book
Full-text available
Discovery of potential bioactive metabolites from sponge-associated bacteria have gained attraction in recent years. The phylogeny of marine sponge; Hyattella sp. associated marine bacterial community was studied by culturing them in Zobell Agar medium. Appropriate dilutions are plated in triplicates and incubated. Following incubation the associat...
Data
DNA ITS barcodes of 161 species of marine yeast collected along the Indian coast.
Research Proposal
Full-text available
The proposal entitled "Inventorying and barcoding of crabs and other animals of Mangrove Ecosystem (Pitchavaram & Coringa) " was successfully funded by MoEs, GoI between 2016 and 2018.
Cover Page
Full-text available
Polychaetes are multi-segmented worms living in all environments in the world's oceans, present from abyssal depths to shallow estuaries and rocky shores, and even free swimming in open water. They are strictly aquatic annelids, but are the most abundant and diverse group of Phylum Annelida. Notably successful in mud and sand habitats, their densit...
Book
Full-text available
Due to rapid global changes and human forced climatic changes, global Ocean is rapidly losing oxygen and the concentrated zones resulting from them are termed Oxygen minimum zones (OMZ). Bacterial diversity in OMZ of Bay of Bengal for long time was unexplored due to dynamics of OMZ in this region and patchy patterns of occurrence. The book reports...
Book
Full-text available
Due to rapid global changes and human forced climatic changes, global Ocean is rapidly losing oxygen and the concentrated zones resulting from them are termed Oxygen minimum zones (OMZ). Bacterial diversity in OMZ of Bay of Bengal for long time was unexplored due to dynamics of OMZ in this region and patchy patterns of occurrence. The book reports...
Research Proposal
Full-text available
Identifying any biological species in the environment is the first step in any ecology and conservation measures. It is estimated that only 25% of 0.7 to 1 million species occurring in marine environment were named. Only a fraction of marine biodiversity occurring around Indian Ocean countries is named besides their taxonomic expertise is dwindling...
Article
Full-text available
Bacterial diversity studies in hypersaline soil often yield novel organisms and contribute to our understanding of this extreme environment. Soil from Mad Boon is previously uncharacterized, with dense mangrove forest in one side and hypersaline soil in another side of backwater located in Southeast coast of Tamil Nadu, India. We surveyed to charac...
Article
Full-text available
DNA barcoding of eggs, larvae and adult of Scylla serrata (Forsskål, 1775) from a hatchery facility was made. The average genetic distance of the selected stages of S. serrata was low at 0.012% with a minimum of 0.00% and maximum of 0.021%. However the distances with other species of the same genus were also tested ; 13.5% for Scylla olivacea (Herb...
Preprint
Full-text available
We aimed to apply DNA barcoding tool for the molecular identification of horn snails T. telescopium using mitochondrial cytochrome oxidase I gene (mt-COI) and to investigate their evolutionary relationship along with location-specific bio-geographical variations. The molecular data sets of this study indicate that strong probability of T. telescopi...
Article
Bacterial diversity studies in hypersaline soil often yield novel organisms and contribute to our understanding of this extreme environment. Soil from Mad Boon is previously uncharacterized, with dense mangrove forest in one side and hypersaline soil in another side of backwater located in Southeast coast of Tamil Nadu, India. We surveyed to charac...
Method
Full-text available
Methodology for DNA barcoding the marine vertebrates and invertebrate animals
Method
Full-text available
Design and dimensions of open marine water cage culture
Chapter
DNA barcoding has proved to be a powerful alternative method to traditional morphological approaches, allowing to complement identification techniques for living organisms. In this study we assess intraspecific and interspecific genetic divergence Among the 6 genera marine polychaetes from Great Nicobar Island of Souther part of the Andaman and Nic...
Chapter
DNA barcoding has proved to be a powerful alternative method to traditional morphological approaches, allowing to complement identification techniques for living organisms. In this study we assess intraspecific and interspecific genetic divergence Among the 6 genera marine polychaetes from Great Nicobar Island of Souther part of the Andaman and Nic...
Article
Full-text available
The promise of DNA barcoding is based on a small DNA fragment divergence coinciding with biological species separation. Present study evaluated the performance of three markers as diatom Skeletonema costatum barcodes, the 18S ribosomal RNA gene, partial sequence (1800 bp) and the internal transcribed spacer 1, partial sequence; 5.8S ribosomal RNA g...
Article
Full-text available
Gnathophausia ingens is a cosmopolitan bathypelagic large mysid belonging to the family Gnathophausiidae of the order Lophogastrida. Occurrence of this species in Bay of Bengal is reported in this paper. DNA barcodes as well as18S rRNA gene sequences were used to confirm the identity and to delineate the phylogeny of G. ingens. The mitochondrial CO...
Article
We have created barcode library for common Argulus spp. infecting Carassius auratus, which could also be used to identify premature forms of Argulus spp. even by non-professionals. Infected C. auratus was examined and purchased from ornamental fish-trading centers and the adult life stage of Argulus spp. was identified and DNA barcoded. The eggs of...
Research Proposal
Full-text available
Previous studies indicate that ocean acidification may strongly decrease the nitrification rate in marine sediments and seawater. However this conclusion may not be completely correct, because the nitrification rate using urea as a substrate instead of ammonia was not considered in these publications. In marine environments, the pool of urea can be...
Article
Full-text available
Gnathophausia ingens is a cosmopolitan bathypelagic large mysid belonging to the family Gnathophausiidae of the order Lophogastrida. Occurrence of this species in Bay of Bengal is reported in this paper. DNA barcodes as well as18S rRNA gene sequences were used to confirm the identity and to delineate the phylogeny of G. ingens. The mitochondrial CO...
Article
We have created barcode library for common Argulus spp. infecting Carassius auratus, which could also be used to identify premature forms of Argulus spp. even by non-professionals. Infected C. auratus was examined and purchased from ornamental fish-trading centers and the adult life stage of Argulus spp. was identified and DNA barcoded. The eggs of...
Article
We employed DNA barcodes for identification of fungal species in marine sediments. Sediments were collected seasonally along the Southeast coast of India from which a culturable fungal library was constructed. All cultured species were morphologically documented using microscopical analysis. A maximum population density of 19.3 × 103 CFU/g was reco...
Article
Full-text available
Species delineation among three genera and ten species of mullets (Family : Mugilidae) (Liza macrolepis, Liza parsia, Liza planiceps, Liza subviridis, Liza tade, Liza vaigiensis, Mugil cephalus, Valamugil cunnesius, Valamugil seheli, Valamugil speigleri) occurring in Parangipettai coastal waters was attempted using morphological characters and by s...
Conference Paper
Research on bio-fouling is important for countries with coastal seawaters. Various researches have been conducted to counteract the economic losses incurred due to bio-fouling. Precise identification of the bio-fouler species is mandatory for any types of remediation measures. We tested the efficacy of DNA barcodes in precise identification of macr...
Article
Full-text available
Cultivable marine bacteria associated with the sponge Hyattella cribriformis (Hyatt, 1877) was studied through 16S rRNAgene sequencing. These marine bacterial colonies produced onZobell Marine agar plates were distinguished based on phenotypic characters viz., colony morphology and pigmentations of the individual colonies. The extracted DNA from th...
Article
Full-text available
The distribution and abundance of the gelatinous zooplankton namely hydromedusae, scyphomedusae, siphonophore, ctenophore, salps, doliolids, appendicularians and chaetognaths were investigated in two seasons at seven stations in East Tamil Nadu coast, India. The occurrences of gelatinous zooplankton were observed to be more in summer than in winter...
Article
Full-text available
Mysis, post larvae and adult specimens of Penaeus monodon were sequenced for Cyctochrome C Oxidase subunit I (COI) gene (DNA barcode) to check the efficiency of DNA barcode in delineating species irrespective of its different life stages. COI gene sequences of different life stages of P. monodon were subjected to pair-wise distance analysis, nucleo...
Thesis
Full-text available
The thesis is developed in marine microbiology area. The study includes the detection of the diversity and function of Prokaryotes (bacteria and archaea) in the Bay of Bengal minimum oxygen zones. Global Ocean is rapidly losing oxygen due to rapid global changes and human forced climate change, and the resulting concentrated zones are called Oxygen...
Article
Full-text available
A detailed study on the length weight relationship of Mugil cephalus in Vellar estuary was conducted between January 2004 and December 2005. Statistical tests such as regression coefficient 'b' and 'a' tests were performed to compare the b values of males and females from the hypothetical value of 3. The b value of male (2.7658) differed significan...
Article
Cultivable marine bacteria associated with the sponge Hyattella cribriformis (Hyatt, 1877) was studied through 16S rRNA gene sequencing. The marine bacterial colonies produced on Zobell marine agar plates were distinguished based on phenotypic characters viz, colony morphology and pigmentation of individual colonies. The extracted DNA from the indi...
Article
Species delineation among three genera and ten species of mullets (Family : Mugilidae) (Liza macrolepis, Liza parsia, Liza planiceps, Liza subviridis, Liza tade, Liza vaigiensis, Mugil cephalus, Valamugil cunnesius, Valamugil seheli, Valamugil speigleri) occurring in Parangipettai coastal waters was attempted using morphological characters and by s...
Article
Mysis, post larvae and adult specimens of Penaeus monodon were sequenced for Cyctochrome C Oxidase subunit I (COI) gene (DNA barcode) to check the efficiency of DNA barcode in delineating species irrespective of its different life stages. COI gene sequences of different life stages of P. monodon were subjected to pair-wise distance analysis, nucleo...