Edit Your Collection

October 16, 2023

16 Oct Edit Your Collection

Posted at 14:46h in by

← Go back

HTML BlockResponses to the following questions (1-28) will be components of the USCCN online searchable database available to all users.
1. Name of Collection Point of ContactNeha Potnis
2. Current PositionAssociate Professor
3. Collection phone number334-844-2524
4. Collection Address209 Rouse life science building
Auburn, AL 36849
United States
Map It
5. Collection emailEmail hidden; Javascript is required.
7. Collection name and abbreviationPotnis lab microbe collection
10. Organizational structure of the Collection:
  • Academia
11. What type of organisms are included in the Collection?
  • Fungi
  • Bacteria
  • Yeast
12. Do you have sequencing data?Yes
Please specify what kind of data16S/ITS, genomes for some bacterial isolates
13. How many of each type of genus are included in the Collection?
Species Quantity
Xanthomonas perforans 25
Xanthomonas euvesicatoria 10
Xanthomonas gardneri 10
Xanthomonas vesicatoria 2
Pseudomonas syringae/cichorii/capsici 50
tomato-associated microbes 250
cucurbit-associated microbes 150
Pepper-associated microbes 100
Xanthomonas spp. 92
15. Please choose one of the following categories that best describes your collection.Research collection (industry or research collection; does not include a plan to distribute strains)
16. What host associations, if any, does your microbial collection have?
  • Vegetables
17. What institution/entity currently houses your collection? (For example, Kansas State University, ARS, private entity)Auburn University
18. Is the institution able to guarantee its support to the Collection for the next three to five years?Yes
19. Does your collection have the ability to accept orphan collections at this time? If yes, please describe your capacity to do so.No
20. Does your collection contain strains that are currently used or could be used for reference strains such as to identify human, animal or plant pathogens? If yes, please explainYes
Capacity

We have a collection of non-pathogenic or opportunistic xanthomonads, some of which belong to potentially new species and these strains belonging to new species could serve as reference strains.
In addition, we have Pseudomonas strains isolated from tomato, pepper, cucurbits that falls into potentially new species. These are particularly interesting given these have been isolated from a broad host range and continue to cause sporadic outbreaks in the fields.
We also have ongoing collection of Xanthomonads from tomato and pepper, isolated from disease outbreaks collected over the span of several years and continuing, including those belonging to new lineages within species and those with recent host range expansion.

21. Do you utilize best practices guidelines for operation of your culture collection?
  • World Federation for Culture Collections Guidelines (http://www.wfcc.info/guidelines/)
22. What is/are the mechanism(s) of availability and distribution?
  • No charge for distribution (shipping may be charged)
  • Peer to peer for collaborations
23. What are the main subjects or fields of use relevant to your collection?
  • Agriculture
  • Ecology
  • General microbiology
  • Genetics
  • Molecular biology
  • Plant pathology
24. If applicable, what services does your Collection provide? Check all that apply
  • Not applicable
25. Does your Collection provide training opportunities on the following? Check all that apply
  • Does not provide training
26. If applicable, does your Collection provide consultation on the following? Check all that apply
  • Does not provide consultation
27. What institutions fund research that users perform using specimens from your collection? Check all that apply
  • National Science Foundation (NSF)
  • United States Department of Agriculture (USDA)
28. Is the Collection willing, within reasonable limits and to the extent that the collection is public, to engage in the exchange of cultures with other collections within the framework of the USCCN?Yes
29. Is the Collection willing to engage, within the limits of its capacity to do so, in collaborative programs with other culture collections for the general betterment of the USCCN?Yes
30. Do you wish to be contacted by researchers and collaborators about your Collection?Yes
31. Would you be interested in collaborating on a project with samples combined from different repositories?Yes
HTML BlockResponses to the following questions (29-36) will NOT be components of the USCCN online database. Information provided will be for internal use only to enhance USCCN service to participants.
32. Is the future of your collection dependent on a single individual in the institution?Yes
33. Is there a contingency plan to be able to guarantee the existence of the collection for at least five years, such as at another institution? Please provide as much detail as possible.No
34. Is your collection currently or in potential danger of becoming an orphan collection? If yes, what means do you have to save the collection? Please provide as much detail as possible.No
35. Would you like assistance with the orphan collection?No
36. What are the greatest needs of your collection at this time? (For example: stable funding, personnel needs, quality control procedures, capacity & equipment, visibility, etc.)

We have ongoing research collection. As for any research programs, we face the problems of stable funding to continue efforts to keep outbreak collections going each year. We have been building microbe collections for microbiome projects and these collections have been largely unexplored at this time due to personnel needs. As we make progress in collecting associated metadata and sequence data, we would like to ensure that our collections become accessible to the scientific community and facilitate collaborations.

37. Would you like your collection to be listed in the Global Biodiversity Information Facility (GBIF) https://www.gbif.org/No
38. Does the Collection support the USCCN mission, which is "to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of humankind by providing opportunities for US culture collection workers to engage with each other and with the broader culture collection community."I agree to support the mission of the USCCN
39. How can USCCN best serve you?

Facilitating collaborations, providing tips to ensure best practices for maintaining research collections, and providing platform to make collections visible to the scientific community.