A. Murat Eren

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A. Murat Eren (Meren)
Born1980 (age 43–44)
Alma materUniversity of New Orleans
Scientific career
FieldsMicrobial ecology, Bioinformatics
InstitutionsMarine Biological Laboratory, and University of Chicago.
ThesisAssessing Microbial Diversity Through Nucleotide Variation (2011)
Doctoral advisorMichael Ferris
Other academic advisorsMitchell Sogin
Websitehttps://meren.org

A. Murat Eren (Meren) is a computer scientist known for his work on microbial ecology and developing novel, open-source, computational tools for analysis of large data sets.

Early life and education

Eren grew up in the Barhal Valley in Turkey and studied cryptography as an undergraduate at Canakkale Onsekiz Mart Universitesi[1] where he earned a B.S. in 2002.[2] He moved to the United States and started his Ph.D. at the University of New Orleans. While working at the Children's Hospital of New Orleans, Eren was introduced to microbiology by Michael Ferris. In 2011 Eren completed his Ph.D.; his dissertation was titled Assessing microbial diversity through nucleotide variation.[3]

Career and research

Eren's Ph.D. research involved developing oligotyping,[4] a computational method to examine the diversity of microorganisms within high throughput sequencing datasets. Following his Ph.D., Eren joined the Marine Biological Laboratory as a postdoctoral scientist, during which he applied oligotyping to microbes that live in the human genitourinary tract,[5] oral cavity,[6][7] and sewage.[8] In 2015 he joined the University of Chicago as an assistant professor,[9] where he started using metagenomics to investigate the ecology and evolution of microbes found in the human gut,[10] human mouth,[11][12] and surface ocean.[13] In 2022, Eren was appointed Professor of Ecosystem Data Science at the University of Oldenburg and the Alfred Wegener Institute for Polar and Marine Research.[14]

Eren is an advocate of open-source software[9] and leads the community development of anvi'o,[15] a platform to allow analysis and visualization of large datasets.[16]

Example of Anvi’o software output

Selected publications

  • Eren, A. Murat; Esen, Özcan C.; Quince, Christopher; Vineis, Joseph H.; Morrison, Hilary G.; Sogin, Mitchell L.; Delmont, Tom O. (8 October 2015). "Anvi'o: an advanced analysis and visualization platform for 'omics data". PeerJ. 3: e1319. doi:10.7717/peerj.1319. ISSN 2167-8359. PMC 4614810. PMID 26500826.
  • Eren, A. Murat; Maignien, Loïs; Sul, Woo Jun; Murphy, Leslie G.; Grim, Sharon L.; Morrison, Hilary G.; Sogin, Mitchell L. (2013). "Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data". Methods in Ecology and Evolution. 4 (12): 1111–1119. doi:10.1111/2041-210X.12114. hdl:1912/6377. ISSN 2041-210X. PMC 3864673. PMID 24358444.
  • Eren, A. Murat; Zozaya, Marcela; Taylor, Christopher M.; Dowd, Scot E.; Martin, David H.; Ferris, Michael J. (25 October 2011). "Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation". PLOS ONE. 6 (10): e26732. Bibcode:2011PLoSO...626732E. doi:10.1371/journal.pone.0026732. ISSN 1932-6203. PMC 3201972. PMID 22046340.
  • Eren, A. Murat; Morrison, Hilary G.; Lescault, Pamela J.; Reveillaud, Julie; Vineis, Joseph H.; Sogin, Mitchell L. (April 2015). "Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences". The ISME Journal. 9 (4): 968–979. doi:10.1038/ismej.2014.195. ISSN 1751-7370. PMC 4817710. PMID 25325381.

Awards and honors

References

  1. ^ Tarcy, Brian (2014-02-22). "A. Murat Eren, The Question-Authority Shepherd At MBL– A Scientist's Unique Story". Cape Cod Wave. Archived from the original on 2015-10-16. Retrieved 2021-08-04.
  2. ^ "A. Murat Eren (Meren), Ph.D." ASM.org. Retrieved 2021-08-04.
  3. ^ Eren, Ahmet Murat (May 2011). Assessing Microbial Diversity Through Nucleotide Variation (PhD dissertation). University of New Orleans.
  4. ^ Eren, A. Murat; Maignien, Loïs; Sul, Woo Jun; Murphy, Leslie G.; Grim, Sharon L.; Morrison, Hilary G.; Sogin, Mitchell L. (2013). "Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data". Methods in Ecology and Evolution. 4 (12): 1111–1119. doi:10.1111/2041-210X.12114. ISSN 2041-210X. PMC 3864673. PMID 24358444.
  5. ^ Eren, A. Murat; Zozaya, Marcela; Taylor, Christopher M.; Dowd, Scot E.; Martin, David H.; Ferris, Michael J. (2011-10-25). "Exploring the Diversity of Gardnerella vaginalis in the Genitourinary Tract Microbiota of Monogamous Couples Through Subtle Nucleotide Variation". PLOS ONE. 6 (10): e26732. Bibcode:2011PLoSO...626732E. doi:10.1371/journal.pone.0026732. ISSN 1932-6203. PMC 3201972. PMID 22046340.
  6. ^ Eren, A. Murat; Borisy, Gary G.; Huse, Susan M.; Mark Welch, Jessica L. (15 July 2014). "Oligotyping analysis of the human oral microbiome". Proceedings of the National Academy of Sciences. 111 (28): E2875–E2884. doi:10.1073/pnas.1409644111. PMC 4104879. PMID 24965363.
  7. ^ Zimmer, Carl (25 June 2014). "The Zoo In the Mouth". Science. Archived from the original on August 4, 2021. Retrieved 4 August 2021.
  8. ^ "Sewage provides insight into human microbiome". ScienceDaily. Retrieved 4 August 2021.
  9. ^ a b "A. Murat Eren". www.mbl.edu. Retrieved 2021-08-04.
  10. ^ Lee, Sonny T. M.; Kahn, Stacy A.; Delmont, Tom O.; Shaiber, Alon; Esen, Özcan C.; Hubert, Nathaniel A.; Morrison, Hilary G.; Antonopoulos, Dionysios A.; Rubin, David T.; Eren, A. Murat (2017-05-04). "Tracking microbial colonization in fecal microbiota transplantation experiments via genome-resolved metagenomics". Microbiome. 5 (1): 50. doi:10.1186/s40168-017-0270-x. ISSN 2049-2618. PMC 5418705. PMID 28473000.
  11. ^ Lim, Joseph (July 10, 2021). "Microbe communities". www.panaynews.net. Retrieved 4 August 2021.
  12. ^ Shaiber, Alon; Willis, Amy D.; Delmont, Tom O.; Roux, Simon; Chen, Lin-Xing; Schmid, Abigail C.; Yousef, Mahmoud; Watson, Andrea R.; Lolans, Karen; Esen, Özcan C.; Lee, Sonny T. M.; Downey, Nora; Morrison, Hilary G.; Dewhirst, Floyd E.; Mark Welch, Jessica L.; Eren, A. Murat (16 December 2020). "Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome". Genome Biology. 21 (1): 292. doi:10.1186/s13059-020-02195-w. ISSN 1474-760X. PMC 7739484. PMID 33323122.
  13. ^ "Large-scale study indicates novel, abundant nitrogen-fixing microbes in surface ocean". EurekAlert!. Retrieved 4 August 2021.
  14. ^ "A. Murat Eren". uol.de. Retrieved 2022-02-14.
  15. ^ "Anvi'o dot org". Anvi'o dot org. Retrieved 2022-02-14.
  16. ^ Eren, A. Murat; Kiefl, Evan; Shaiber, Alon; Veseli, Iva; Miller, Samuel E.; Schechter, Matthew S.; Fink, Isaac; Pan, Jessica N.; Yousef, Mahmoud; Fogarty, Emily C.; Trigodet, Florian (2021). "Community-led, integrated, reproducible multi-omics with anvi'o". Nature Microbiology. 6 (1): 3–6. doi:10.1038/s41564-020-00834-3. ISSN 2058-5276. PMC 8116326. PMID 33349678.
  17. ^ "Three University of Chicago scientists named 2020 Sloan Fellows | University of Chicago News". news.uchicago.edu. Retrieved 4 August 2021.
  18. ^ "A. Murat Eren Awarded 2021 American Society for Microbiology Award | Microbiology". micro.uchicago.edu. Retrieved 2021-08-04.
  19. ^ https://researchparasite.com/#past-recipients

External links

Retrieved from "https://mdwiki.org/wiki/A._Murat_Eren"