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: 86
Latest Activity: Sep 7

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


You need to be a member of Problems in DNA barcoding to add comments!

Comment by Gaikwad Swapnil Sopan on September 7, 2015 at 2:53am

Hi Handan,

Apologies for late reply...

Fungus and plant DNA together could be problem...but in this case you can used plant specific ITS primer and that would surely solve the problem.



Comment by Handan on August 12, 2015 at 2:36pm

I am trying to amplify the nuclear ribosomal dna internal transcribed spacers (its1 and its4) from leaves of Cyperaceae using "universal" primers.

But some species is host plant for fungi, So Two species were a molecular mixture as a result of unsuccessful and non-specific amplifications.

Comment by sreejith kanholi on November 7, 2014 at 5:46am
I have got a curated specimen of Viverridae family. The specimen is dried and kept in the museum for many years. I doubt that it is treated with borric powder and other preservative used in taxidermy. How can we remove the inhibitant from the sample of tissue for the purpose of sequencing.
Is there any common or specific primers available for this group.
Comment by Gaikwad Swapnil Sopan on July 24, 2014 at 5:14am

Dear Sreejith,
There is no specific kit for such isolation. But you can wash your samples with PBS with continuous shaking at slow speed and you can keep this for overnight also and then try to isolate DNA

Comment by sreejith kanholi on July 24, 2014 at 5:01am

Dear all, I am trying to isolate DNA from Borric acid/sodium borate preserved dried specimen. Is there any isolation Kit available for this type .

Comment by Gaikwad Swapnil Sopan on July 24, 2014 at 4:12am

Dear Amrita,

This is regarding dendogram, you can concatenate sequence of both the locus and then generate dendogram using MEGA

Comment by Amrita Sinha on July 24, 2014 at 2:46am

Hello everyone, 

Presently I am using MEGA5 software for analyzing the data obtained from sequencing. But it generates one dendrogram for one locus. Is their any free software available for generating a combined dendrograms using more than one locus.

Thank you.

Comment by Amrita Sinha on July 24, 2014 at 2:43am

Hello Mam,

I wanted to know the protocol used to make the master mix. I had obtained the amplicons using the Bamboo DNA and barcode primers. Now by using the components of Big dye Direct cycle sequencing kit how can I make the reaction mix to amplify for subjection to sequencing and what procedure must I follow

Comment by PRIYANKA MISHRA on July 23, 2014 at 3:21am

hello Amrita,

Please elaborate the problems step wise, you are facing during sequencing.

Comment by Amrita Sinha on July 23, 2014 at 3:10am


Presently I am working on DNA barcoding in bamboos. I am facing problem in sequencing. Any one can please help me in providing the protocols for sequencing. I have with me 3500 genetic analyzer and Big dye Direct cycle sequencing kit.


Members (86)



Tory's site-wide code

New to the Connect network?

Watch our Intro Webinar

Introduce yourself to the Connect community

Write a blog post

Ask a question

Tory's code

© 2015   Created by Mike Trizna.   Powered by

Badges  |  Report an Issue  |  Terms of Service