international online community for dna barcoding professionals


Problems in DNA barcoding

Dear all, This group is intend to solve problems occurred while analyzing barcode sequences and using appropriate method of analysis.

Website: http://problemsindnabarcoding
Location: Pune, Maharashtra, India
Members: 89
Latest Activity: Jan 16, 2016

Discussion Forum

Sequence error

Started by sreejith kanholi. Last reply by Gaikwad Swapnil Sopan Jul 24, 2014. 6 Replies

I have doing my deposition of sequence in the NCBI, but when one of the sequence is deposited I have got a message stating that some or all of the sequences contain reading frame shifts…Continue

DNA Barcoding in bacteria

Started by D. ESTHER LEBONAH. Last reply by D. ESTHER LEBONAH Nov 20, 2013. 2 Replies

Hai to all, I need 100% details on DNA Barcoding of bacteria from soil samples by culture independent methods. I have a problem from the beginning of bacterial DNA extraction to Pyrosequencing. So,…Continue

MatK gene region in angiosperm

Started by Handan. Last reply by Paula May 29, 2012. 5 Replies

Dear all,I am currently working on DNA Barcoding of some plants (belonging to Angiosperm). Fistly ı did not use DMSO for MatK gene region. But sequence results are not good and then ı use the DMSO,…Continue


Started by Dr.C.VADIVALAGAN. Last reply by Anoja Kurian Jan 6, 2012. 5 Replies

Hello sir/madam,                     I am currently working on  DNA Barcoding of the odonata.Am in the initial stages of sample collection and only limited referece are available on this area of…Continue

Tags: gene, CO1, odonata, primer

My Comment Wall


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Comment by rehab refaat mohammed on January 26, 2014 at 2:15am

Dear all

i need informations on DNA barcoding of reptiles, please i need help


Comment by Amir Bashir on November 13, 2013 at 12:41am

Dear all,

me a new worker on barcode of fishes , i request all to send protocals

Comment by Dr.C.VADIVALAGAN on May 8, 2012 at 1:19pm

Dear all,

        I Have completed my molecular Biology work now am planing to move on computation work (Barcoding) now i done molecular Phylogeny and protein Docking but i didnt get any idea about coding software. 

can you sagest coding software, its very useful for completing my research.

Thanking you all

with regards,

Chithravel Vadivalagan


Comment by Rakshit Ojha on April 29, 2012 at 9:24am

hello everybody,

i am working with some museum ant specimens which are around 30-40 years old (when collected) and the ants are alcohol preserved and the alcohol is not changed for past 28 years. I am facing problems to extract DNA from them, is there any protocol through which i can extract DNA from such old samples...if any please suggest. Thank you all. 

Comment by Prasanna Kumar on December 7, 2011 at 11:56am

@  Gaikwad Swapnil Sopan

Thanx for the reply. Even though MLGS is recommended, u would agree that we need single or not more than two gene markers to call it as barcode. I personally felt that if we pin point a particular locus, we could sort it out. Thanx for the reply.

Comment by Prasanna Kumar on December 7, 2011 at 11:53am

@ Hi Chelzie

I am please to know that u have made progress in bacterial barcoding. I like to see ur abstracts as i could not download it from the web. I missed the conference due to last minute emergency. Else we would heve met. Plz mail the your abstracts to As rpoB's efficacy in delineating bacilli and other bacterial species has been well established, what are the difficulties you are facing? What sort of improvements should one be expecting? like to discuss further with u. Thanx for the reply.

Comment by Gaikwad Swapnil Sopan on December 7, 2011 at 1:11am

Hi Prasanna Kumar,

Story of bacteria is really different.....if you look at the intraspecies divergences. I do agree with  Chelzie Crenna Darusallam   rpoB is better marker. However, for bacteria MLST approach is followed i.e. multiple locus sequence typing and thus status of new species is confimed. And further this is approved by DNA DNA hybridisation.

I hope this will help you,

Keep posting,


Comment by Chelzie Crenna Darusallam on December 7, 2011 at 12:46am

Hi Prasanna Kumar,

I am working in marine bacteria and assessed DNA barcode (rpoB gene) to identify (you can found my abstract poster in the conference web -C7). The rpoB showed promising result however as the new marker it still need some improvement(s). The idea for DNA barcode for bacteria is find the core gene (as has been described in Rodoni's presentation in the conference)..I am very pleased to discussed further with you.

Comment by Prasanna Kumar on December 6, 2011 at 11:57pm

Hi hope all had blast in fourth conference. As dna barcoding technology have been expanded and it almost touched every aspects of tree of life, but one group that remained isolated is bacteria. Although the problems of barcoding bacteria is discussed @, the article promises to define a barcode gene for this prokaryotic group in near future. I wish to know is there any such gene in practice? I am very much interested to define and produce DNA barcodes for bacteria, especially for marine bacteria. I hold 84species of freshly isolated marine bacteria from bay of bengal and its respective 16SrRNA sequences. Many species in same family shared 2% to 0.5% variation which overcame the species boundary of 3% variations. I kindly request all members in this group to help me define and target a particular gene for bacterial barcoding. I have rpoB gene in mind, and have either positive points nor negative points to support or oppose it. So please help me to sort out the problem? could this be solved?, is another question poping up now.


Thanks for the reply.

Comment by Gaikwad Swapnil Sopan on April 2, 2010 at 1:19am
Yes, I have checked the orientation, it is prefect. But I can't deny the fact of pseudogen. i hope to solve the same.
Thanks for the response. Hope to see more inputs from you.
Keep posting.

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