Senthilkumar ShanmugavelOregon State University | OSU · College of Agricultural Sciences
Senthilkumar Shanmugavel
PhD
About
15
Publications
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121
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Introduction
Additional affiliations
March 2012 - January 2016
Publications
Publications (15)
Main conclusion
A 541 Mb draft genome of Pterocarpus santalinus is presented and evidence of whole-genome duplication in the Eocene period with expansion of drought responsive gene families is documented.
Abstract
Pterocarpus santalinus Linn. f., popularly known as Red Sanders, is a deciduous tree, endemic to southern parts of Eastern Ghats in Ind...
Dalbergia latifolia Roxb. has high economic and ecological value owing to its durable timber characteristics. In the present study, a near complete chloroplast (Cp) genome of D. latifolia was assembled from leaf transcriptome data using reference‐based assembly. The Cp genome was 158 966 bp long and contained 116 genes, including 32 tRNAs, 4 rRNAs...
Pterocarpus dalbergioides commonly known as Andaman Padauk is endemic to the Andaman Islands of India and is known for its exquisite timber quality. Due to overexploitation and poor regeneration, the species is classified as vulnerable by International Union for Conservation of Nature (IUCN). There are no genomic resources reported in this species...
Sugarcane is an economically important commercial crop which provides raw material for the production of sugar, jaggery, bioethanol, biomass and other by-products. Sugarcane breeding till today heavily relies on conventional breeding approaches which is time consuming, laborious and costly. Integration of marker-assisted selection (MAS) in sugarcan...
Sugarcane is the largest world's tonnage crop, with an average yield of 80 tons per hectare. The theoretical yield potential of sugarcane is 381 tons per hectare. It contributes to food, feed, and energy, while mitigating greenhouse gas (GHG) emissions in many regions of the globe. Apart from the genomic resources such as large expressed sequence t...
Globally, Eucalyptus plantations occupy 22 million ha area and is one of the preferred hardwood species due to their short rotation, rapid growth, adaptability and wood properties. In this study, we present results of GWAS in parents and 100 hybrids of Eucalyptus tereticornis × E. grandis using 762 genes presumably involved in wood formation. Compa...
Chloroplast genome sequencing is an essential tool to understand genome evolution and phylogenetic relationship. The available methods for constructing chloroplast genome include chloroplast enrichment followed by long overlapping PCR or extraction and assembly of chloroplast-specific reads from whole-genome datasets. In the present study, we propo...
In commercial plantations, mass propagation and deployment of identified and tested clones has potential economic benefits. However, the major challenge is the adventitious rooting ability of high yielding genotypes. In Eucalyptus, large-scale plantations of hybrid clones with enhanced productivity are well documented. However, the understanding of...
Unigene sequence tagged microsatellite markers were used to analyze the genetic diversity among 30 sugarcane clones with different genetic background to identify diverse parents for utilizing in crossing program. Jaccards similarity co-efficient value based on the molecular marker indicated that eight new ISH and IGH clones viz., IA 1504, SSCD 941,...
Twenty-five primer pairs developed from genomic simple sequence repeats (SSR) were compared with 25 expressed sequence tags (EST) SSRs to evaluate the efficiency of these two sets of primers using 59 sugarcane genetic stocks. The mean polymorphism information content (PIC) of genomic SSR was higher (0.72) compared to the PIC value recorded by EST-S...
Development and production of high biomass energy canes offers great scope for continuous supply of feed stock to green power industries. More fiber, high biomass, moderate brix and multiple ratoonability are the ideal characters of energy cane. Interspecific and intergeneric (IGH) hybrids of sugarcane (Saccharum spp.) involving various related spe...
RAPD and STMS primers (15 of each) were employed to reveal genetic diversity among 23 high biomass producing sugarcane hybrids (Saccharum spp. complex). These high biomass hybrids were derived from Saccharum gene pool that consist of commercial hybrids (Co canes), genetic stocks with special characters, interspecific and intergeneric hybrids, and m...
Introgression of new desirable agronomically important genes from related species and genera into commercial sugarcane varieties is the essential component of varietal development programme. At Sugarcane Breeding Institute, Coimbatore wide crosses involving Saccharum spontaneum or S. robustum and Erianthus arundinaceus were made and genetic stocks...
Questions
Questions (2)
Hi everyone ,. I am trying to elute DNA from my acrlamide gel, we tried over night soaking method and v channel electro elution, for precipitation I am using glycogen since I am unable to get precipitation at very low concentration of DNA ~400bp. Even when I am using 40 ug of glycogen for about 1.2 ml of elute with twice the volume EtOH and centrifuging at 14000 rpm for 15 min at RT and -20 c I am unable to get any pellet, can anyone help or share a protocol for glycogen pricipitation
Hi everyone, I am trying to sequence a 440 bp SSR-QTL which i got through Association Mapping, now i am trying to amplify the band in PCR with the same SSR primer pair, now i'm getting amplification but along with that i am also getting multiple bands, and those bands are consistent with the PCR profile generated by the primer when i used it on genomic DNA, where i am going wrong , is it possible to rectify this problem or this is the way i will get amplification while amplifying a SSR QTL. thanks in advance
