home icon user icon
Welcome to International Network for Natural Sciences | INNS Pub.
Home My Account
Submit Manuscript
double_slash
breadcumb_bg

Comparative studies of Indian and Malaysian Thapaocleidus siamensis using molecular marker

Paper Details

Research Paper 01/01/2014
Views (290) Download (8)
current_issue_feature_image
publication_file

Comparative studies of Indian and Malaysian Thapaocleidus siamensis using molecular marker

Saroj Rajvanshi, Nirupama Agrawal
J. Bio. Env. Sci.4( 1), 116-121, January 2014.
Certificate: JBES 2014 [Generate Certificate]
Key: Comparative studyMotif identificationSecondary structureThparocleidus

Abstract

In the present communication the sequence of an exotic species of genus Thaparocleidus i.e T. siamensis (Lim, 1990) Lim, 1996 (collected in India) has been compared with that of Malaysian, on in silico basis using 28S rDNA. Since, both are morphologically more or less similar and effect of environment on T. siamensis cannot access structurally. Thus to evaluate the environmental effects on 28S rDNA region of T. siamensis, a comparative study has been done for Indian (obtained) and Malaysian (retrieved) T. siamensis using MEME Suite, MARNA and ExpaRNA (online softwares)). The results obtained showing a shift in genetic material because of climatic changes in India.

VIEWS 10
Cover PDF

Billoud B, Guerrucci MA, Masselot M, Deutsch JS. 2000.  Cirripede  phylogeny  using  a novel approach: molecular morphometrics. Molecular Biology and Evolution 17, 1435–1445.

Grajales A, Aguilar C, Sanchez J. 2007. Phylogenetic reconstruction using secondary structures of internal transcribed spacer 2 (ITS2, rDNA): finding the molecular and morphological gap in Caribbean gorgonian corals. BMC Evolutionary Biology 7, 90.

Moritz C, Cicero C. 2005. DNA barcoding: promise and pitfalls. PLoS Biology 2, 1529–1531.

Schultz J, Maisel S, Gerlach D, Mueller T, Wolf M. 2005. A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota. RNA 11, 361–364.

Smith C, Heyne S, Richter AS, Will S, Backofen R. 2010. Freiburg RNA Tools: a web server integrating IntaRNA, ExpaRNA and LocARNA. Nucleic Acid Research 38, W373-W377.

Rajvanshi S, Agrawal N. 2013. One known and unknown species of of the genus Thaparocleidus, Jain, 1952, infecting Sperata aor (Hamilton, 1822): Camparison with species from China, on molecular basis. Bioinformation 9 (11), 577-582.

Timothy L, Bailey, Charles E. 1994. Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, AAAI Press, Menlo Park, California. 28-36.

Thompson JD, Higgins DG, Gibson TJ. 2003. Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions- specific gap penalties and weight matrix choice. Nucleic Acid Research 22, 4673-80.

Tamura K, Nei M, Kumar S. 2004. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, AAAI Press, Menlo Park, California. 101, 11030-11035.

Tandon V. 2007. Molecular taxonomy of trematodes parasites-protocols to follow. Manual of the workshop on fish-parasites-taxonomy capacity building. Andhra University, Visakhapatnam, India 79-86.

Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Molecular Biology and Evolution 28, 2731-2739.

Will S, Reiche K, Hofacker IL, Peter FS, Backofen R. 2007. Inferring non-coding RNA families and classes by means of genome-scale structure-based clustering. PLoS Computational Biology 3(4), e65.

Will S, Joshi T, Hofacker IL, Stadler PF, Backofen R. 2012. LocARNA-P: Accurate boundary prediction and improved detection of structural RNAs. RNA 18(5), 900-14.

Zwieb C, Glotz C, Brimacombe R. 1981 Secondary structure comparisons between small subunit ribosomal RNA molecules from six different species. Nucleic Acids Research 9, 3621– 3640. http://www.genomicsplace.com/gc_calc.html www.fishbase.org, version (04/2013).

Submit Manuscript