DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: A latitudinal diversity gradient in terrestrial bacteria of the genus Streptomyces

Abstract

We show that Streptomyces biogeography in soils across North America is influenced by the regional diversification of microorganisms due to dispersal limitation and genetic drift. Streptomyces spp. form desiccation-resistant spores, which can be dispersed on the wind, allowing for a strong test of whether dispersal limitation governs patterns of terrestrial microbial diversity. We employed an approach that has high sensitivity for determining the effects of genetic drift. Specifically, we examined the genetic diversity and phylogeography of physiologically similar Streptomyces strains isolated from geographically distributed yet ecologically similar habitats. We found that Streptomyces beta diversity scales with geographic distance and both beta diversity and phylogenetic diversity manifest in a latitudinal diversity gradient. This pattern of Streptomyces biogeography resembles patterns seen for diverse species of plants and animals, and we therefore evaluated these data in the context of ecological and evolutionary hypotheses proposed to explain latitudinal diversity gradients. The data are consistent with the hypothesis that niche conservatism limits dispersal, and historical patterns of glaciation have limited the time for speciation in higher-latitude sites. Most notably, higher-latitude sites have lower phylogenetic diversity, higher phylogenetic clustering, and evidence of range expansion from lower latitudes. In addition, patterns of beta diversity partition with respectmore » to the glacial history of sites. Furthermore, the data support the hypothesis that extant patterns of Streptomyces biogeography have been driven by historical patterns of glaciation and are the result of demographic range expansion, dispersal limitation, and regional diversification due to drift.« less

Authors:
 [1];  [1];  [1];  [1];  [1];  [1]
  1. Cornell Univ., Ithaca, NY (United States)
Publication Date:
Research Org.:
Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1357327
Report Number(s):
LLNL-JRNL-705146
Journal ID: ISSN 2150-7511
Grant/Contract Number:  
AC52-07NA27344
Resource Type:
Accepted Manuscript
Journal Name:
mBio (Online)
Additional Journal Information:
Journal Name: mBio (Online); Journal Volume: 7; Journal Issue: 2; Journal ID: ISSN 2150-7511
Publisher:
American Society for Microbiology
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Andam, Cheryl P., Doroghazi, James R., Campbell, Ashley N., Kelly, Peter J., Choudoir, Mallory J., and Buckley, Daniel H. A latitudinal diversity gradient in terrestrial bacteria of the genus Streptomyces. United States: N. p., 2016. Web. doi:10.1128/mBio.02200-15.
Andam, Cheryl P., Doroghazi, James R., Campbell, Ashley N., Kelly, Peter J., Choudoir, Mallory J., & Buckley, Daniel H. A latitudinal diversity gradient in terrestrial bacteria of the genus Streptomyces. United States. https://doi.org/10.1128/mBio.02200-15
Andam, Cheryl P., Doroghazi, James R., Campbell, Ashley N., Kelly, Peter J., Choudoir, Mallory J., and Buckley, Daniel H. Tue . "A latitudinal diversity gradient in terrestrial bacteria of the genus Streptomyces". United States. https://doi.org/10.1128/mBio.02200-15. https://www.osti.gov/servlets/purl/1357327.
@article{osti_1357327,
title = {A latitudinal diversity gradient in terrestrial bacteria of the genus Streptomyces},
author = {Andam, Cheryl P. and Doroghazi, James R. and Campbell, Ashley N. and Kelly, Peter J. and Choudoir, Mallory J. and Buckley, Daniel H.},
abstractNote = {We show that Streptomyces biogeography in soils across North America is influenced by the regional diversification of microorganisms due to dispersal limitation and genetic drift. Streptomyces spp. form desiccation-resistant spores, which can be dispersed on the wind, allowing for a strong test of whether dispersal limitation governs patterns of terrestrial microbial diversity. We employed an approach that has high sensitivity for determining the effects of genetic drift. Specifically, we examined the genetic diversity and phylogeography of physiologically similar Streptomyces strains isolated from geographically distributed yet ecologically similar habitats. We found that Streptomyces beta diversity scales with geographic distance and both beta diversity and phylogenetic diversity manifest in a latitudinal diversity gradient. This pattern of Streptomyces biogeography resembles patterns seen for diverse species of plants and animals, and we therefore evaluated these data in the context of ecological and evolutionary hypotheses proposed to explain latitudinal diversity gradients. The data are consistent with the hypothesis that niche conservatism limits dispersal, and historical patterns of glaciation have limited the time for speciation in higher-latitude sites. Most notably, higher-latitude sites have lower phylogenetic diversity, higher phylogenetic clustering, and evidence of range expansion from lower latitudes. In addition, patterns of beta diversity partition with respect to the glacial history of sites. Furthermore, the data support the hypothesis that extant patterns of Streptomyces biogeography have been driven by historical patterns of glaciation and are the result of demographic range expansion, dispersal limitation, and regional diversification due to drift.},
doi = {10.1128/mBio.02200-15},
journal = {mBio (Online)},
number = 2,
volume = 7,
place = {United States},
year = {Tue Apr 12 00:00:00 EDT 2016},
month = {Tue Apr 12 00:00:00 EDT 2016}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record

Citation Metrics:
Cited by: 40 works
Citation information provided by
Web of Science

Save / Share:

Works referenced in this record:

Aerobiology and the global transport of desert dust
journal, November 2006


Global Dispersal of Free-Living Microbial Eukaryote Species
journal, May 2002


Cosmopolitan Metapopulations of Free-Living Microbial Eukaryotes
journal, June 2004


Beyond biogeographic patterns: processes shaping the microbial landscape
journal, May 2012

  • Hanson, China A.; Fuhrman, Jed A.; Horner-Devine, M. Claire
  • Nature Reviews Microbiology, Vol. 10, Issue 7
  • DOI: 10.1038/nrmicro2795

Global patterns in the biogeography of bacterial taxa: Global bacterial biogeography
journal, August 2010


Microbial biogeography: putting microorganisms on the map
journal, February 2006

  • Martiny, Jennifer B. Hughes; Bohannan, Brendan J. M.; Brown, James H.
  • Nature Reviews Microbiology, Vol. 4, Issue 2
  • DOI: 10.1038/nrmicro1341

Microbial diversity and the genetic nature of microbial species
journal, May 2008

  • Achtman, Mark; Wagner, Michael
  • Nature Reviews Microbiology, Vol. 6, Issue 6
  • DOI: 10.1038/nrmicro1872

Counting the Uncountable: Statistical Approaches to Estimating Microbial Diversity
journal, October 2001


Calibrating bacterial evolution
journal, October 1999

  • Ochman, H.; Elwyn, S.; Moran, N. A.
  • Proceedings of the National Academy of Sciences, Vol. 96, Issue 22
  • DOI: 10.1073/pnas.96.22.12638

The Rest of the Iceberg. Legume Diversity and Evolution in a Phylogenetic Context
journal, March 2003


Spatial scaling of microbial biodiversity
journal, September 2006


Population Genomics of Early Events in the Ecological Differentiation of Bacteria
journal, April 2012

  • Shapiro, B. Jesse; Friedman, Jonathan; Cordero, Otto X.
  • Science, Vol. 336, Issue 6077
  • DOI: 10.1126/science.1218198

Patterns of Gene Flow Define Species of Thermophilic Archaea
journal, February 2012


Recombination Shapes the Natural Population Structure of the Hyperthermophilic Archaeon Sulfolobus islandicus
journal, August 2005

  • Whitaker, Rachel J.; Grogan, Dennis W.; Taylor, John W.
  • Molecular Biology and Evolution, Vol. 22, Issue 12
  • DOI: 10.1093/molbev/msi233

Geographic Barriers Isolate Endemic Populations of Hyperthermophilic Archaea
journal, August 2003


Phylogeographic reconstruction of a bacterial species with high levels of lateral gene transfer
journal, January 2009

  • Pearson, Talima; Giffard, Philip; Beckstrom-Sternberg, Stephen
  • BMC Biology, Vol. 7, Issue 1
  • DOI: 10.1186/1741-7007-7-78

Pre-Columbian Origins for North American Anthrax
journal, March 2009


Phylogenetic study of the species within the family Streptomycetaceae
journal, November 2011


How many antibiotics are produced by the genus Streptomyces ?
journal, November 2001

  • Watve, Milind; Tickoo, Rashmi; Jog, Maithili
  • Archives of Microbiology, Vol. 176, Issue 5
  • DOI: 10.1007/s002030100345

Widespread homologous recombination within and between Streptomyces species
journal, April 2010


Spatial Variation in Streptomyces Genetic Composition and Diversity in a Prairie Soil
journal, October 2004


Genetic and phenotypic evidence for Streptomyces griseus ecovars isolated from a beach and dune sand system
journal, May 2008

  • Antony-Babu, Sanjay; Stach, James E. M.; Goodfellow, Michael
  • Antonie van Leeuwenhoek, Vol. 94, Issue 1
  • DOI: 10.1007/s10482-008-9246-y

Sympatric inhibition and niche differentiation suggest alternative coevolutionary trajectories among Streptomycetes
journal, October 2013

  • Kinkel, Linda L.; Schlatter, Daniel C.; Xiao, Kun
  • The ISME Journal, Vol. 8, Issue 2
  • DOI: 10.1038/ismej.2013.175

Phylogenetic Balance and Ecological Evenness
journal, December 2002


Biogeography of Actinomycete Communities and Type II Polyketide Synthase Genes in Soils Collected in New Jersey and Central Asia
journal, March 2007

  • Wawrik, Boris; Kutliev, Djumaniyaz; Abdivasievna, Urinova A.
  • Applied and Environmental Microbiology, Vol. 73, Issue 9
  • DOI: 10.1128/AEM.02611-06

Biogeography and Degree of Endemicity of Fluorescent Pseudomonas Strains in Soil
journal, December 2000


Endemism and functional convergence across the North American soil mycobiome
journal, April 2014

  • Talbot, J. M.; Bruns, T. D.; Taylor, J. W.
  • Proceedings of the National Academy of Sciences, Vol. 111, Issue 17
  • DOI: 10.1073/pnas.1402584111

Emerging patterns in the comparative analysis of phylogenetic community structure
journal, February 2009


The diversity and biogeography of soil bacterial communities
journal, January 2006

  • Fierer, N.; Jackson, R. B.
  • Proceedings of the National Academy of Sciences, Vol. 103, Issue 3
  • DOI: 10.1073/pnas.0507535103

Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale
journal, June 2009

  • Lauber, C. L.; Hamady, M.; Knight, R.
  • Applied and Environmental Microbiology, Vol. 75, Issue 15
  • DOI: 10.1128/AEM.00335-09

The Family Streptomycetaceae, Part I: Taxonomy
book, January 2006


On the Generality of the Latitudinal Diversity Gradient
journal, February 2004

  • Hillebrand, Helmut
  • The American Naturalist, Vol. 163, Issue 2
  • DOI: 10.1086/381004

Evolution and the latitudinal diversity gradient: speciation, extinction and biogeography
journal, April 2007


Historical biogeography, ecology and species richness
journal, December 2004


Predictions and tests of climate-based hypotheses of broad-scale variation in taxonomic richness
journal, December 2004


Global Biodiversity, Biochemical Kinetics, and the Energetic-Equivalence Rule
journal, August 2002


Niche conservatism as an emerging principle in ecology and conservation biology: Niche conservatism, ecology, and conservation
journal, July 2010


Historical processes enhance patterns of diversity along latitudinal gradients
journal, July 2006

  • Stevens, Richard D.
  • Proceedings of the Royal Society B: Biological Sciences, Vol. 273, Issue 1599
  • DOI: 10.1098/rspb.2006.3596

Genetic consequences of climatic oscillations in the Quaternary
journal, February 2004

  • Hewitt, G. M.
  • Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences, Vol. 359, Issue 1442
  • DOI: 10.1098/rstb.2003.1388

The genetic legacy of the Quaternary ice ages
journal, June 2000


Some genetic consequences of ice ages, and their role in divergence and speciation
journal, July 1996


Founder takes all: density-dependent processes structure biodiversity
journal, February 2013

  • Waters, Jonathan M.; Fraser, Ceridwen I.; Hewitt, Godfrey M.
  • Trends in Ecology & Evolution, Vol. 28, Issue 2
  • DOI: 10.1016/j.tree.2012.08.024

Postglacial Population Expansion Drives the Evolution of Long-Distance Migration in a Songbird
journal, November 2006


The impact of Pleistocene glaciation across the range of a widespread European coastal species: EUROPEAN COASTAL RECOLONIZATION
journal, September 2010


Comparative phylogeography of Nearctic and Palearctic fishes
journal, April 1998


Phylogeography of a post-glacial colonizer: Microtus longicaudus (Rodentia: Muridae)
journal, February 2000


Assembly history dictates ecosystem functioning: evidence from wood decomposer communities: Carbon dynamics and fungal community assembly
journal, April 2010


Time of Maximum Late Wisconsin Glaciation, West Coast of Canada
journal, November 1990


Phylogeography of post-Pleistocene population expansion in a fungus-gardening ant and its microbial mutualists
journal, October 2008


Dispersal limitation and the assembly of soil Actinobacteria communities in a long-term chronosequence : Actinobacterial Phylogeography
journal, February 2012

  • Eisenlord, Sarah D.; Zak, Donald R.; Upchurch, Rima A.
  • Ecology and Evolution, Vol. 2, Issue 3
  • DOI: 10.1002/ece3.210

Evolutionary constraints on regional faunas: whom, but not how many
journal, January 2009


Sea-level history of the past two interglacial periods: new evidence from U-series dating of reef corals from south Florida
journal, March 2011


A latitudinal diversity gradient in planktonic marine bacteria
journal, May 2008

  • Fuhrman, J. A.; Steele, J. A.; Hewson, I.
  • Proceedings of the National Academy of Sciences, Vol. 105, Issue 22
  • DOI: 10.1073/pnas.0803070105

Selective Isolation of Aerobic Actinomycetes
journal, March 1963


Use of Randomly Amplified Polymorphic DNA as a Means of Developing Genus- and Strain-Specific Streptomyces DNA Probes
journal, June 2000


A multilocus phylogeny of the Streptomyces griseus 16S rRNA gene clade: use of multilocus sequence analysis for streptomycete systematics
journal, January 2008

  • Guo, Y.; Zheng, W.; Rong, X.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 58, Issue 1
  • DOI: 10.1099/ijs.0.65224-0

MUSCLE: multiple sequence alignment with high accuracy and high throughput
journal, March 2004

  • Edgar, R. C.
  • Nucleic Acids Research, Vol. 32, Issue 5, p. 1792-1797
  • DOI: 10.1093/nar/gkh340

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
journal, August 2006


RAMI: a tool for identification and characterization of phylogenetic clusters in microbial communities
journal, February 2009


The ecodist Package for Dissimilarity-based Analysis of Ecological Data
journal, January 2007

  • Goslee, Sarah C.; Urban, Dean L.
  • Journal of Statistical Software, Vol. 22, Issue 7
  • DOI: 10.18637/jss.v022.i07

Cytoscape 2.8: new features for data integration and network visualization
journal, December 2010


Phylocom: software for the analysis of phylogenetic community structure and trait evolution
journal, August 2008


TCS: a computer program to estimate gene genealogies
journal, October 2000


GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes
journal, April 2000


The Automation and Evaluation of Nested Clade Phylogeographic Analysis
journal, June 2007


Works referencing / citing this record:

Palaeoclimate explains a unique proportion of the global variation in soil bacterial communities
journal, August 2017

  • Delgado-Baquerizo, Manuel; Bissett, Andrew; Eldridge, David J.
  • Nature Ecology & Evolution, Vol. 1, Issue 9
  • DOI: 10.1038/s41559-017-0259-7

Latitudinal gradient of cyanobacterial diversity in tidal flats
journal, November 2019


Drivers of Microbiome Biodiversity: A Review of General Rules, Feces, and Ignorance
journal, July 2018


Depth-Dependent Patterns of Bacterial Communities and Assembly Processes in a Typical Red Soil Critical Zone
journal, November 2019


Consistently inconsistent drivers of microbial diversity and abundance at macroecological scales
journal, June 2017

  • Hendershot, John Nicholas; Read, Quentin D.; Henning, Jeremiah A.
  • Ecology, Vol. 98, Issue 7
  • DOI: 10.1002/ecy.1829

Densities and inhibitory phenotypes among indigenous Streptomyces spp. vary across native and agricultural habitats
journal, October 2019


Recent advances in understanding Streptomyces
journal, January 2016


Dark, rare and inspirational microbial matter in the extremobiosphere: 16 000 m of bioprospecting campaigns
journal, December 2019


It is elemental: soil nutrient stoichiometry drives bacterial diversity: C:N:P stoichiometry drives bacterial diversity
journal, February 2017

  • Delgado-Baquerizo, Manuel; Reich, Peter B.; Khachane, Amit N.
  • Environmental Microbiology, Vol. 19, Issue 3
  • DOI: 10.1111/1462-2920.13642

The latitudinal diversity gradient in New World swallowtail butterflies is caused by contrasting patterns of out-of- and into-the-tropics dispersal
journal, November 2017

  • Owens, Hannah L.; Lewis, Delano S.; Dupuis, Julian R.
  • Global Ecology and Biogeography, Vol. 26, Issue 12
  • DOI: 10.1111/geb.12672

Dispersal alters bacterial diversity and composition in a natural community
journal, October 2017

  • Albright, Michaeline B. N.; Martiny, Jennifer B. H.
  • The ISME Journal, Vol. 12, Issue 1
  • DOI: 10.1038/ismej.2017.161

Variation in range size and dispersal capabilities of microbial taxa
journal, January 2018

  • Choudoir, Mallory J.; Barberán, Albert; Menninger, Holly L.
  • Ecology, Vol. 99, Issue 2
  • DOI: 10.1002/ecy.2094

Biophysical processes supporting the diversity of microbial life in soil
journal, August 2017


Taxonomic and Metabolic Incongruence in the Ancient Genus Streptomyces
journal, September 2019

  • Chevrette, Marc G.; Carlos-Shanley, Camila; Louie, Katherine B.
  • Frontiers in Microbiology, Vol. 10
  • DOI: 10.3389/fmicb.2019.02170

Embracing the unknown: disentangling the complexities of the soil microbiome
journal, August 2017


Population Genomics Insights into Adaptive Evolution and Ecological Differentiation in Streptomycetes
journal, January 2019

  • Li, Yisong; Pinto-Tomás, Adrián A.; Rong, Xiaoying
  • Applied and Environmental Microbiology, Vol. 85, Issue 7
  • DOI: 10.1128/aem.02555-18

A Phylogenetic and Functional Perspective on Volatile Organic Compound Production by Actinobacteria
journal, March 2019


Transmission of Bacterial Endophytes
journal, November 2017


Biophysical processes supporting the diversity of microbial life in soil
text, January 2017