international online community for dna barcoding professionals
Introductions
Welcome to Connect, the DNA Barcoder community network!
We hope this network will be a place for communication and collaboration on a global scale, overcoming the rather dispersed nature of DNA barcoder researchers and enthusiasts.
As a first step, why not introduce yourself to the community via the comment box below? Including your name, institution, interest in DNA barcoding, and what you hope to get from this community would be a great way to start.
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Replies to This Discussion
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Permalink Reply by Julie Stahlhut on -
Dear Meenakshi,
This URL links to an article on spider barcoding. A brief protocol is given on page 32 of the article (which is page 6 of the PDF.)
http://pensoftonline.net/zookeys/index.php/journal/article/view/239...
The description is very brief, but the authors used two different primer sets that are very commonly used here at BIO. One was the "tailed Folmer" set, LCO1490_t1 + HCO2198_t1. The products are then sequenced with M13 forward and reverse sequencing primers. The other pair was LepF1 + LepR1, which were developed for Lepidoptera but work well in many other arthropods. These products are sequenced with the same primers used for amplification.
You can find information about these primers at the URL below:
http://www.boldsystems.org/views/primerlist.php
Best wishes for a successful project!
-- Julie Stahlhut
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Permalink Reply by meenakshi sharma on -
Dear Julie
thanks for the reply . The link which you had send me thats very helpful but the barcoding requires a 96 well plate setting do you have a idea from where i could get that set up
Meenakshi
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Permalink Reply by Julie Stahlhut on
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Dear Meenakshi,
I'm not sure what you mean by a 96-well plate setting. Are you going to send specimens to a different laboratory, or are you doing the sequencing reactions yourself?
-- Julie
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Permalink Reply by meenakshi sharma on
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Dear julie,
actually I would like to send the specimen to laboratory but I dont have information where its done in India and if I do on my own then I am not having set up just I am having protocol could you help me out please.
Meenakshi
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Permalink Reply by Gulab D Khedkar on -
Dear Dr. Meenakshi,
one of my student is working on spiders from Maharashtra state, you can plan to come with your samples at our facility or else send the samples we can do barcodig for spiders,
---GD
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Permalink Reply by C.Vadivalagan on -
hi Meenaksi, am vadivalagan, c working in DNA barcoding in snakes in the department of zoology Bharathiar university, coimbatore 46 if you need some basic idea i will give you what ever may be in the field i can give you. please give me your details and what do you want
thank yoy
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Permalink Reply by karan veer singh on -
where do you work meenakshi, i would be happy to provide help and guidence
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Permalink Reply by Niladri Bhusan Kar on
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Dear meenakshi I know one person who is a student of Dr. D. B. Bastawade. He works on the theraphosidae. you can contact him or even talk to me (although i am working on amphibians). You have not specified where you work and what kind of facilities you ahve in your lab. I can suggest you even some good places where you can send your DNA samples of interest for sequencing. They are prety cheap. So you have to make you problems a little bit more clear.
with warm regards
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Permalink Reply by Dr. SHERLY P ANAND on
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Dear Friends,
I am Dr. Sherly P Anand, Associate Professor , Dept. of Zoology, S N College, Kollam, Kerala, India. I have documented all fishes of one river namely Kakkadar in Western Ghats in Kerala. Identification of some species under Genus puntius faced great difficulty. I wish to conduct barcoding of all fishes coming under this genus in the fresh water bodies in kerala. But we have limited facilities and resources.
I hope that our research group to could find out a solution to conduct barcoding studies of these fishes in Kerala
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Permalink Reply by Virash Kamal Gupta on -
Dear Dr Anand,
The type of difficulty is not explained. Most likely it is due to nonavailability of barcode data on the Genus Puntius itself as well as genra close to the same leaving a big blank in refernce library of BOLD browser. Here lies the commitment to strengthen the reference database by contributing your efforts on taxonomical identification of these fish genra and species. Alteranively, it may be possible that traditional taxonomy has failed in correctly defining the evolutionary origin of this fish genra. I have not worked with fishes but enormousely with insect species belongin to different orders and families and barcode sequence has proved exceptionally good for their identification through defined coxI sequence.
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Permalink Reply by Dr. SHERLY P ANAND on
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Dear Mr.Virash Kamal Gupta,
Thank for your reply. My problem is that,there is no facility to barcode my fish tissue samples.How could I use the reference library of Bold without sequecing fishes of our locality?
I have one more request sir,
Can you help me to conduct barcoding of some mosquitos in Kerala?
Sherly
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Permalink Reply by Virash Kamal Gupta on
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Simple procedure will be PCR amplify DNA from a very small (~50mg) fish tissue using conserved barcode primers in 5' region of COI of other fish species. The amplicon should be between 600-670 bp. Cut the agarose block containing this DNA band and submit it for sequencing to 'Bangalore Genei', who will custom sequence this DNA using same barcode primer. The sequencing should cost Rs 850 per read and 1700 for both strand read.
Same procedure will be followed for mosquitoes except for you need to isolate total DNA from single mosquito and use insect specific primers for amplification of DNA barcoding region. Information on these primer sequences is available with BOLD in BOLD taxonomy browser. Besides, you have to record all taxonomic parameters used in traditional taxonomy for identifying specific species of fish or mosquitoes with all details on their source of isolation.
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