Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam

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Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam. / Thi Phi Oanh Nguyen; Hansen, Martin Asser; Hansen, Lars Hestbjerg; Horemans, Benjamin; Sorensen, Soren Johannes; De Mot, Rene; Springael, Dirk.

I: FEMS Microbiology Ecology, Bind 95, Nr. 1, 214, 01.2019.

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avisTidsskriftartikelForskningpeer review

Harvard

Thi Phi Oanh Nguyen, Hansen, MA, Hansen, LH, Horemans, B, Sorensen, SJ, De Mot, R & Springael, D 2019, 'Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam', FEMS Microbiology Ecology, bind 95, nr. 1, 214. https://doi.org/10.1093/femsec/fiy214

APA

Thi Phi Oanh Nguyen, Hansen, M. A., Hansen, L. H., Horemans, B., Sorensen, S. J., De Mot, R., & Springael, D. (2019). Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam. FEMS Microbiology Ecology, 95(1), [214]. https://doi.org/10.1093/femsec/fiy214

CBE

Thi Phi Oanh Nguyen, Hansen MA, Hansen LH, Horemans B, Sorensen SJ, De Mot R, Springael D. 2019. Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam. FEMS Microbiology Ecology. 95(1):Article 214. https://doi.org/10.1093/femsec/fiy214

MLA

Vancouver

Author

Thi Phi Oanh Nguyen ; Hansen, Martin Asser ; Hansen, Lars Hestbjerg ; Horemans, Benjamin ; Sorensen, Soren Johannes ; De Mot, Rene ; Springael, Dirk. / Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam. I: FEMS Microbiology Ecology. 2019 ; Bind 95, Nr. 1.

Bibtex

@article{9514d9119c8e47fb92a54e7f5be9af3f,
title = "Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam",
abstract = "The tfd genes mediating degradation of the herbicide 2,4-dichlorophenoxyacetic acid (2,4-D) differ in composition and organization in bacterial isolates from different geographical origin and are carried by different types of mobile genetic elements (MGE). It is not known whether such global diversity of 2,4-D-catabolic MGE and their tfd gene cargo is reflected in the diversity at field scale. The genomic context of the 2,4-D catabolic genes of 2,4-D-degrading isolates from two rice fields with a 2,4-D application history, located in two distant provinces of the Vietnam Mekong delta, was compared. All isolates were beta-proteobacteria, were unique for each rice field and carried the catabolic genes on MGE and especially plasmids. Most plasmids were IncP-1 beta plasmids and carried tfd clusters highly similar to those of the IncP-1 beta plasmid pJP4, typified by two chlorophenol catabolic gene modules (tfd-I and tfd-II). IncP-1 beta plasmids from the same field showed small deletions and/or insertions in accessory metabolic genes. One plasmid belonged to an unclassified plasmid group and carries a copy of both tfdA and tfd-II identical to those in the IncP-1 beta plasmids. Our results indicate intra-field evolution and inter-field exchange of 2,4-D-catabolic IncP-1 beta plasmids as well as the exchange of tfd genes between different plasmids within a confined local environment.",
keywords = "2,4-D biodegradation, catabolic plasmid, tfd genes, local evolution, plasmid diversity, HOST-RANGE PLASMIDS, NUCLEOTIDE-SEQUENCE, TRANSPOSON, BACTERIA, SOIL, PJP4, ORGANIZATION, ADAPTATION, CHLOROPHENOL, METABOLISM",
author = "{Thi Phi Oanh Nguyen} and Hansen, {Martin Asser} and Hansen, {Lars Hestbjerg} and Benjamin Horemans and Sorensen, {Soren Johannes} and {De Mot}, Rene and Dirk Springael",
year = "2019",
month = jan,
doi = "10.1093/femsec/fiy214",
language = "English",
volume = "95",
journal = "F E M S Microbiology Ecology",
issn = "0168-6496",
publisher = "Oxford University Press",
number = "1",

}

RIS

TY - JOUR

T1 - Intra- and inter-field diversity of 2,4-dichlorophenoxyacetic acid-degradative plasmids and their tfd catabolic genes in rice fields of the Mekong delta in Vietnam

AU - Thi Phi Oanh Nguyen, null

AU - Hansen, Martin Asser

AU - Hansen, Lars Hestbjerg

AU - Horemans, Benjamin

AU - Sorensen, Soren Johannes

AU - De Mot, Rene

AU - Springael, Dirk

PY - 2019/1

Y1 - 2019/1

N2 - The tfd genes mediating degradation of the herbicide 2,4-dichlorophenoxyacetic acid (2,4-D) differ in composition and organization in bacterial isolates from different geographical origin and are carried by different types of mobile genetic elements (MGE). It is not known whether such global diversity of 2,4-D-catabolic MGE and their tfd gene cargo is reflected in the diversity at field scale. The genomic context of the 2,4-D catabolic genes of 2,4-D-degrading isolates from two rice fields with a 2,4-D application history, located in two distant provinces of the Vietnam Mekong delta, was compared. All isolates were beta-proteobacteria, were unique for each rice field and carried the catabolic genes on MGE and especially plasmids. Most plasmids were IncP-1 beta plasmids and carried tfd clusters highly similar to those of the IncP-1 beta plasmid pJP4, typified by two chlorophenol catabolic gene modules (tfd-I and tfd-II). IncP-1 beta plasmids from the same field showed small deletions and/or insertions in accessory metabolic genes. One plasmid belonged to an unclassified plasmid group and carries a copy of both tfdA and tfd-II identical to those in the IncP-1 beta plasmids. Our results indicate intra-field evolution and inter-field exchange of 2,4-D-catabolic IncP-1 beta plasmids as well as the exchange of tfd genes between different plasmids within a confined local environment.

AB - The tfd genes mediating degradation of the herbicide 2,4-dichlorophenoxyacetic acid (2,4-D) differ in composition and organization in bacterial isolates from different geographical origin and are carried by different types of mobile genetic elements (MGE). It is not known whether such global diversity of 2,4-D-catabolic MGE and their tfd gene cargo is reflected in the diversity at field scale. The genomic context of the 2,4-D catabolic genes of 2,4-D-degrading isolates from two rice fields with a 2,4-D application history, located in two distant provinces of the Vietnam Mekong delta, was compared. All isolates were beta-proteobacteria, were unique for each rice field and carried the catabolic genes on MGE and especially plasmids. Most plasmids were IncP-1 beta plasmids and carried tfd clusters highly similar to those of the IncP-1 beta plasmid pJP4, typified by two chlorophenol catabolic gene modules (tfd-I and tfd-II). IncP-1 beta plasmids from the same field showed small deletions and/or insertions in accessory metabolic genes. One plasmid belonged to an unclassified plasmid group and carries a copy of both tfdA and tfd-II identical to those in the IncP-1 beta plasmids. Our results indicate intra-field evolution and inter-field exchange of 2,4-D-catabolic IncP-1 beta plasmids as well as the exchange of tfd genes between different plasmids within a confined local environment.

KW - 2,4-D biodegradation

KW - catabolic plasmid

KW - tfd genes

KW - local evolution

KW - plasmid diversity

KW - HOST-RANGE PLASMIDS

KW - NUCLEOTIDE-SEQUENCE

KW - TRANSPOSON

KW - BACTERIA

KW - SOIL

KW - PJP4

KW - ORGANIZATION

KW - ADAPTATION

KW - CHLOROPHENOL

KW - METABOLISM

U2 - 10.1093/femsec/fiy214

DO - 10.1093/femsec/fiy214

M3 - Journal article

C2 - 30380047

VL - 95

JO - F E M S Microbiology Ecology

JF - F E M S Microbiology Ecology

SN - 0168-6496

IS - 1

M1 - 214

ER -