Accurate detection of soil microbial community responses to environmental change requires the use of multiple methods

Ernest D. Osburn; Steven G. McBride; Joseph V. Kupper; Jim A. Nelson; David H. McNear; Rebecca L. McCulley; J. E. Barrett

doi:10.1016/j.soilbio.2022.108685

Accurate detection of soil microbial community responses to environmental change requires the use of multiple methods

Ernest D. Osburn
, Steven G. McBride
, Joseph V. Kupper
, Jim A. Nelson
, David H. McNear
, Rebecca L. McCulley
, J. E. Barrett

Plant and Soil Sciences

Producción científica: Article › revisión exhaustiva

19 Citas (Scopus)

Resumen

Identifying general patterns in microbial community responses to global change factors remains a challenge in soil ecology, partially due to different methods used to characterize microbial communities among studies. In this study, we used DNA-based (qPCR, sequencing) and PLFA approaches to assess microbial responses to both land use change and drought-rewetting. Both methods detected microbial community responses to land use change but the drought-rewetting responses detected by the two methods were qualitatively different: PLFAs revealed clear effects of soil drying on microbial communities, which 16S sequencing did not. In contrast, sequencing revealed strong responses to rewetting, which PLFAs did not show. Further, PLFAs revealed a marked increase in fungal:bacterial (F:B) ratios following drought, which was not evident in our qPCR data. Overall, our results show that full elucidation of microbial community responses to global change will require the use of multiple methodological approaches.

Idioma original	English
Número de artículo	108685
Publicación	Soil Biology and Biochemistry
Volumen	169
DOI	https://doi.org/10.1016/j.soilbio.2022.108685
Estado	Published - jun 2022

Nota bibliográfica

Publisher Copyright:
© 2022 Elsevier Ltd

Financiación

This work was funded by the Coweeta LTER, funded by National Science Foundation grant DEB-1637522 , a United States Department of Agriculture Postdoctoral Fellowship ( NIFA 1023307 ), and by the Virginia Tech Global Change Center. We thank the Coweeta Hydrologic Laboratory, Southern Research Station, USDA Forest Service for support. We also thank Bobbie Niederlehner for help with analytical chemistry. This work was funded by the Coweeta LTER, funded by National Science Foundation grant DEB-1637522, a United States Department of Agriculture Postdoctoral Fellowship (NIFA 1023307), and by the Virginia Tech Global Change Center. We thank the Coweeta Hydrologic Laboratory, Southern Research Station, USDA Forest Service for support. We also thank Bobbie Niederlehner for help with analytical chemistry.

Financiadores	Número del financiador
Virginia Tech Global Change Center
National Science Foundation Arctic Social Science Program	DEB-1637522
U.S. Department of Agriculture	NIFA 1023307
U.S. Dept. of Agriculture Forest Service

ODS de las Naciones Unidas

Este resultado contribuye a los siguientes Objetivos de Desarrollo Sostenible

Life on land

ASJC Scopus subject areas

Microbiology
Soil Science

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title = "Accurate detection of soil microbial community responses to environmental change requires the use of multiple methods",

abstract = "Identifying general patterns in microbial community responses to global change factors remains a challenge in soil ecology, partially due to different methods used to characterize microbial communities among studies. In this study, we used DNA-based (qPCR, sequencing) and PLFA approaches to assess microbial responses to both land use change and drought-rewetting. Both methods detected microbial community responses to land use change but the drought-rewetting responses detected by the two methods were qualitatively different: PLFAs revealed clear effects of soil drying on microbial communities, which 16S sequencing did not. In contrast, sequencing revealed strong responses to rewetting, which PLFAs did not show. Further, PLFAs revealed a marked increase in fungal:bacterial (F:B) ratios following drought, which was not evident in our qPCR data. Overall, our results show that full elucidation of microbial community responses to global change will require the use of multiple methodological approaches.",

keywords = "Drought, Forest, PLFA, Rewetting, Sequencing, fungal:bacterial, qPCR",

author = "Osburn, \{Ernest D.\} and McBride, \{Steven G.\} and Kupper, \{Joseph V.\} and Nelson, \{Jim A.\} and McNear, \{David H.\} and McCulley, \{Rebecca L.\} and Barrett, \{J. E.\}",

note = "Publisher Copyright: {\textcopyright} 2022 Elsevier Ltd",

year = "2022",

month = jun,

doi = "10.1016/j.soilbio.2022.108685",

language = "English",

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AU - Osburn, Ernest D.

AU - McBride, Steven G.

AU - Kupper, Joseph V.

AU - Nelson, Jim A.

AU - McNear, David H.

AU - McCulley, Rebecca L.

AU - Barrett, J. E.

PY - 2022/6

Y1 - 2022/6

N2 - Identifying general patterns in microbial community responses to global change factors remains a challenge in soil ecology, partially due to different methods used to characterize microbial communities among studies. In this study, we used DNA-based (qPCR, sequencing) and PLFA approaches to assess microbial responses to both land use change and drought-rewetting. Both methods detected microbial community responses to land use change but the drought-rewetting responses detected by the two methods were qualitatively different: PLFAs revealed clear effects of soil drying on microbial communities, which 16S sequencing did not. In contrast, sequencing revealed strong responses to rewetting, which PLFAs did not show. Further, PLFAs revealed a marked increase in fungal:bacterial (F:B) ratios following drought, which was not evident in our qPCR data. Overall, our results show that full elucidation of microbial community responses to global change will require the use of multiple methodological approaches.

AB - Identifying general patterns in microbial community responses to global change factors remains a challenge in soil ecology, partially due to different methods used to characterize microbial communities among studies. In this study, we used DNA-based (qPCR, sequencing) and PLFA approaches to assess microbial responses to both land use change and drought-rewetting. Both methods detected microbial community responses to land use change but the drought-rewetting responses detected by the two methods were qualitatively different: PLFAs revealed clear effects of soil drying on microbial communities, which 16S sequencing did not. In contrast, sequencing revealed strong responses to rewetting, which PLFAs did not show. Further, PLFAs revealed a marked increase in fungal:bacterial (F:B) ratios following drought, which was not evident in our qPCR data. Overall, our results show that full elucidation of microbial community responses to global change will require the use of multiple methodological approaches.

KW - Drought

KW - Forest

KW - PLFA

KW - Rewetting

KW - Sequencing

KW - fungal:bacterial

KW - qPCR

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ER -

Accurate detection of soil microbial community responses to environmental change requires the use of multiple methods

Resumen

Nota bibliográfica

Financiación

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ASJC Scopus subject areas

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