Applied Microbiology and Biotechnology, volume 103, issue 8, pages 3277-3287
Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi
1
Institute of Plant and Microbial Biology, Academia Sinica, Taipei City, Taiwan
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2
Institute of Biological Chemistry, Academia Sinica, Taipei City, Taiwan
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Publication type: Journal Article
Publication date: 2019-03-12
Quartile SCImago
Q1
Quartile WOS
Q1
Impact factor: 5
ISSN: 01757598, 14320614
PubMed ID:
30859257
General Medicine
Applied Microbiology and Biotechnology
Biotechnology
Abstract
Secondary metabolites (SM) produced by fungi and bacteria have long been of exceptional interest owing to their unique biomedical ramifications. The traditional discovery of new natural products that was mainly driven by bioactivity screening has now experienced a fresh new approach in the form of genome mining. Several bioinformatics tools have been continuously developed to detect potential biosynthetic gene clusters (BGCs) that are responsible for the production of SM. Although the principles underlying the computation of these tools have been discussed, the biological background is left underrated and ambiguous. In this review, we emphasize the biological hypotheses in BGC formation driven from the observations across genomes in bacteria and fungi, and provide a comprehensive list of updated algorithms/tools exclusively for BGC detection. Our review points to a direction that the biological hypotheses should be systematically incorporated into the BGC prediction and assist the prioritization of candidate BGC.
Citations by journals
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1 publication, 1.41%
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1 publication, 1.41%
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1 publication, 1.41%
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Frontiers in Fungal Biology
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1 publication, 1.41%
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Ocean Science Journal
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Ocean Science Journal, 1, 1.41%
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1 publication, 1.41%
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1 publication, 1.41%
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BMC Research Notes
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1 publication, 1.41%
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1 publication, 1.41%
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1 publication, 1.41%
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Marine Genomics
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Marine Genomics
1 publication, 1.41%
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Planta Medica
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Planta Medica
1 publication, 1.41%
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1 publication, 1.41%
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1 publication, 1.41%
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2
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Citations by publishers
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2
4
6
8
10
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Elsevier
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10 publications, 14.08%
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Multidisciplinary Digital Publishing Institute (MDPI)
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10 publications, 14.08%
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Springer Nature
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9 publications, 12.68%
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American Chemical Society (ACS)
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American Chemical Society (ACS)
6 publications, 8.45%
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Wiley
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Wiley
4 publications, 5.63%
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Public Library of Science (PLoS)
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Public Library of Science (PLoS)
3 publications, 4.23%
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American Society for Microbiology
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American Society for Microbiology
2 publications, 2.82%
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Frontiers Media S.A.
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Frontiers Media S.A.
2 publications, 2.82%
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Royal Society of Chemistry (RSC)
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2 publications, 2.82%
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Xi'an Jiaotong University
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Xi'an Jiaotong University, 1, 1.41%
Xi'an Jiaotong University
1 publication, 1.41%
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Korea Ocean Research & Development Institute and Korean Society of Oceanography
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Korea Ocean Research & Development Institute and Korean Society of Oceanography, 1, 1.41%
Korea Ocean Research & Development Institute and Korean Society of Oceanography
1 publication, 1.41%
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Thieme
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Thieme
1 publication, 1.41%
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Oxford University Press
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Oxford University Press
1 publication, 1.41%
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State Institution National Antarctic Scientific Center, Ministry of Education and Science of Ukraine"
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State Institution National Antarctic Scientific Center, Ministry of Education and Science of Ukraine", 1, 1.41%
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1 publication, 1.41%
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American Institute of Physics (AIP)
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American Institute of Physics (AIP)
1 publication, 1.41%
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Proceedings of the National Academy of Sciences (PNAS)
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Proceedings of the National Academy of Sciences (PNAS)
1 publication, 1.41%
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Cold Spring Harbor Laboratory
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Cold Spring Harbor Laboratory
1 publication, 1.41%
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The Royal Society
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The Royal Society
1 publication, 1.41%
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South Florida Publishing LLC
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South Florida Publishing LLC, 1, 1.41%
South Florida Publishing LLC
1 publication, 1.41%
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10
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- We do not take into account publications that without a DOI.
- Statistics recalculated only for publications connected to researchers, organizations and labs registered on the platform.
- Statistics recalculated weekly.
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Tran P. N. et al. Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi // Applied Microbiology and Biotechnology. 2019. Vol. 103. No. 8. pp. 3277-3287.
GOST all authors (up to 50)
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Tran P. N., Yen M., Chiang C., Lin H., Chen P. Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi // Applied Microbiology and Biotechnology. 2019. Vol. 103. No. 8. pp. 3277-3287.
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TY - JOUR
DO - 10.1007/s00253-019-09708-z
UR - https://doi.org/10.1007%2Fs00253-019-09708-z
TI - Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi
T2 - Applied Microbiology and Biotechnology
AU - Tran, Phuong Nguyen
AU - Yen, Ming-Ren
AU - Chiang, Chen-Yu
AU - Lin, Hsiao-Ching
AU - Chen, Pao-Yang
PY - 2019
DA - 2019/03/12 00:00:00
PB - Springer Nature
SP - 3277-3287
IS - 8
VL - 103
PMID - 30859257
SN - 0175-7598
SN - 1432-0614
ER -
Cite this
BibTex
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@article{2019_Tran,
author = {Phuong Nguyen Tran and Ming-Ren Yen and Chen-Yu Chiang and Hsiao-Ching Lin and Pao-Yang Chen},
title = {Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi},
journal = {Applied Microbiology and Biotechnology},
year = {2019},
volume = {103},
publisher = {Springer Nature},
month = {mar},
url = {https://doi.org/10.1007%2Fs00253-019-09708-z},
number = {8},
pages = {3277--3287},
doi = {10.1007/s00253-019-09708-z}
}
Cite this
MLA
Copy
Tran, Phuong Nguyen, et al. “Detecting and prioritizing biosynthetic gene clusters for bioactive compounds in bacteria and fungi.” Applied Microbiology and Biotechnology, vol. 103, no. 8, Mar. 2019, pp. 3277-3287. https://doi.org/10.1007%2Fs00253-019-09708-z.