Ecological Archives E096-016-A2

Kristin L. Matulich and Jennifer B. H. Martiny. 2015. Microbial composition alters the response of litter decomposition to environmental change. Ecology 96:154–163. http://dx.doi.org/10.1890/14-0357.1

Appendix B. Supplementary results: microbial composition affects a model ecosystem’s functional response to environmental change.

Table B1. Bacterial and fungal composition of the 8 community assemblages (grouped by taxonomic phylum and family), whether the strain was detected in pyrosequencing of the inoculated microcosm litter, and it's corresponding GenBank accession number. If the strain was detected in natural litter pyrosequencing data, its percent abundance in these libraries ("Natural Abundance") is also shown. Some strains that were identified in the microcosm pyrosequencing data but were not or rarely detected in a natural leaf litter community are identified as (-) and (negligible), respectively. Lastly, the natural abundance of taxonomic families is shown.

Bacterial Strains

Community

Detected in Sequencing Data

Accession Number

Natural Abundance (%)

Natural Abundance of Family (%)

1

2

3

4

5

6

7

8

Actinobacteria

 

 

 

 

 

 

 

 

 

 

 

 

 

Cellulomonadaceae

 

 

 

 

 

 

 

 

 

 

 

0.001

 

 

Cellulomonas sp.

 

 

 

X

 

 

X

 

 

KF881975

 

 

 

Microbacteriaceae

 

 

 

 

 

 

 

 

 

 

 

37.400

 

 

Clavibacter michiganensis

X

 

 

 

X

 

 

 

 

KF733313

 

 

 

 

Cryocola sp.

 

 

 

X

 

X

 

 

 

KF733303

 

 

 

 

Curtobacterium sp.

 

 

X

 

X

 

 

 

X

KF733300

18.638

 

 

 

Frigoribacterium sp.

 

X

 

 

 

 

 

X

 

KF881977

 

 

 

 

Microbacteriaceae sp. 1

 

X

 

 

X

 

 

 

X

KF881980

-

 

 

 

Microbacteriaceae sp. 2

 

X

 

 

 

 

X

 

 

KF881976

 

 

 

 

Microbacteriaceae sp. 3

 

 

 

X

X

 

 

 

X

KF881981

-

 

 

 

Microbacterium sp.

 

 

X

 

 

 

 

X

 

KF881979

 

 

 

 

Plantibacter cousiniae

 

 

 

X

 

 

 

X

X

KF733314

0.227

 

 

 

Schumannella luteola

 

 

 

X

 

 

X

 

X

KF733311

negligible

 

 

 

Schumannella sp.

X

 

 

 

 

 

 

X

 

KF881974

 

 

 

Micrococcaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.463

 

 

Arthrobacter sp.

 

 

X

 

X

 

 

 

X

KF733309

0.122

 

 

Nocardiaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.449

 

 

Nocardiaceae sp.

 

 

X

 

 

X

 

 

X

KF733304

0.956

 

 

 

Rhodococcus cercidiphylli

 

 

 

X

 

 

 

X

X

KF733316

0.162

 

 

 

Rhodococcus sp.

 

X

 

 

X

 

 

 

X

KF733317

0.162

 

 

Sanguibacteraceae

 

 

 

 

 

 

 

 

 

 

 

 

0.265

 

 

Sanguibacter sp. 1

X

 

 

 

 

X

 

 

X

KF733318

0.287

 

 

 

Sanguibacter sp. 2

 

X

 

 

 

X

 

 

 

KF733319

 

 

Bacteriodetes

 

 

 

 

 

 

 

 

 

 

 

 

 

Flexibacteraceae

 

 

 

 

 

 

 

 

 

 

 

 

18.575

 

 

Dyadobacter sp.

 

 

X

 

 

 

 

X

X

KF733324

0.214

 

 

Flavobacteriaceae

 

 

 

 

 

 

 

 

 

 

 

 

1.054

 

 

Flavobacterium sp.

X

 

 

 

 

 

 

X

X

KF733322

0.275

 

 

Sphingobacteriaceae

 

 

 

 

 

 

 

 

 

 

 

 

5.052

 

 

Pedobacter borealis

X

 

 

 

 

X

 

 

X

KF733323

0.008

 

Proteobacteria

 

 

 

 

 

 

 

 

 

 

 

 

 

Hyphomicrobiaceae

 

 

 

 

 

 

 

 

 

 

 

 

6.607

 

 

Devosia sp.

 

 

 

X

 

 

 

X

X

KF881983

0.378

 

 

Oxalobacteraceae

 

 

 

 

 

 

 

 

 

 

 

 

3.506

 

 

Duganella zoogloeoides

 

X

 

 

 

 

X

 

X

KF733339

0.151

 

 

Pseudomonadaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.008

 

 

Pseudomonas fluorescens

 

 

X

 

X

 

 

 

X

KF733338

0.003

 

 

 

Pseudomonas sp. 1

X

 

 

 

 

X

 

 

 

KF733326

 

 

 

 

Pseudomonas sp. 2

 

X

 

 

 

X

 

 

X

KF733336

-

 

 

 

Pseudomonas sp. 3

 

 

X

 

 

 

X

 

X

KF733329

0.003

 

 

 

Pseudomonas synxantha

 

 

X

 

 

 

X

 

X

KF733328

0.003

 

 

Rhizobiaceae

 

 

 

 

 

 

 

 

 

 

 

 

2.578

 

 

Rhizobium sp.

X

 

 

 

 

X

 

 

X

KF881978

negligible

 

 

Sphingomonadaceae

 

 

 

 

 

 

 

 

 

 

 

 

1.537

 

 

Novosphingobium sp.

X

 

 

 

 

 

X

 

X

KF881984

0.425

 

 

 

Sphingomonas sp.

 

 

 

X

 

 

X

 

 

KF881985

 

 

 

Not Classified

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Erythrobacteraceae sp.

 

X

 

 

X

 

 

 

X

KF881982

0.203

 

 

Fungal Strains

Community

Detected in Sequencing Data

Accession Number

Natural Abundance (%)

Natural Abundance of Family (%)

1

2

3

4

5

6

7

8

Ascomycota

 

 

 

 

 

 

 

 

 

 

 

 

 

Sphingomonadaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.191

 

 

Neofusicoccium sp.

 

X

 

 

 

 

X

 

X

KF733350

-

 

 

Diatrypaceae

 

 

 

 

 

 

 

 

 

 

 

 

negligible

 

 

Phaeomoniella sp.

 

 

 

X

 

 

 

X

X

KF733354

negligible

 

 

Dothideaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.634

 

 

Dothidea sp.

X

 

 

 

 

 

X

 

X

KF733353

-

 

 

Hypocreaceae

 

 

 

 

 

 

 

 

 

 

 

 

negligible

 

 

Hypocreales koningii

 

 

 

X

X

 

 

 

X

KF733347

-

 

 

 

Hypocreales sp.

 

X

 

 

 

X

 

 

X

KF733366

negligible

 

 

Lasiosphaeriaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.451

 

 

Cercophora sp. 1

 

 

 

X

 

X

 

 

X

KF733357

 

 

 

 

Cercophora sp. 2

X

 

 

 

 

 

 

X

X

KF881973

 

 

 

Nectriaceae

 

 

 

 

 

 

 

 

 

 

 

 

0.102

 

 

Gibberella sp.

 

 

X

 

 

 

X

 

X

KF733374

0.029

 

 

Pleosporaceae

 

 

 

 

 

 

 

 

 

 

 

 

39.829

 

 

Alternaria sp. 1

 

 

 

X

 

 

 

X

X

KF733341

-

 

 

 

Alternaria sp. 2

 

 

X

 

 

 

 

X

X

KF733365

-

 

 

 

Lewia sp.

 

 

X

 

 

X

 

 

X

KF733349

-

 

 

Phaeosphaeriaceae

 

 

 

 

 

 

 

 

 

 

 

 

6.770

 

 

Pleosporales sp. 1

 

X

 

 

 

 

X

 

X

KF733356

0.032

 

 

 

Pleosporales sp. 2

 

X

 

 

 

 

 

X

X

KF733370

0.032

 

 

Not Classified

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Camarosporium brabeji

 

 

 

X

 

X

 

 

X

KF733369

negligible

 

 

 

Dothideomycetes sp.

X

 

 

 

 

 

X

 

X

KF733351

-

 

 

 

Helotiales sp. 1

 

 

X

 

 

X

 

 

X

KF733352

-

 

 

 

Helotiales sp. 2

 

X

 

 

X

 

 

 

X

KF733364

-

 

 

 

Sordariomycetes sp.

X

 

 

 

X

 

 

 

X

KF733373

negligible

 

Basidiomycota

 

 

 

 

 

 

 

 

 

 

 

 

 

Not Classified

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Cryptococcus sp. 1

 

 

 

X

 

 

 

X

 

KF733355

 

 

 

 

Cryptococcus sp. 2

 

 

X

 

 

 

X

 

X

KF733358

0.669

 

 

 

Cryptococcus sp. 3

 

X

 

 

 

X

 

 

 

KF733368

 

 

 

 

Cryptococcus sp. 4

 

 

X

 

X

 

 

 

 

KF733375

 

 

Zygomycota

 

 

 

 

 

 

 

 

 

 

 

 

 

Mucoraceae

 

 

 

 

 

 

 

 

 

 

 

 

negligible

 

 

Mucor racemosus 1

X

 

 

 

X

 

 

 

X

KF733344

negligible

 

 

 

Mucor racemosus 2

X

 

 

 

X

 

 

 

X

KF733345

negligible

 

 

FigB1

Fig. B1. Nonmetric multidimensional scaling (NMDS) ordination based on Bray Curtis similarites depicting bacterial community composition. The samples inoculated with the same initial microbial community are displayed in the same symbol color (8 communities total). The shape of the symbols represent the environmental treatment, either control conditions (filled squares), reduced moisture (open squares), elevated nitrogen (diamonds), and increased temperature (triangles). The initial microbial inoculum (stars) is also plotted and identified by community assemblage but excluded from analyses. N = 3 per community and treatment combination.

 

FigB2 

Fig. B2. Total community richness (bacterial and fungi) for each treatment by the eight microbial communities. Gray boxes represent initial community richness of inoculum, blue boxes represent microcosms in control conditions, yellow in reduced moisture, green in elevated nitrogen, and red in elevated temperature. N = 3 for each box. Asterisks (*) represent significant difference between treatment and control conditions, and crosses (+) represent significant difference between inoculum and treatment. Significant variations determined from Tukey post hoc test.

 

FigB3

Fig. B3. Daily microbial respiration rates of each sampling period averaged over all microbial communities for each environmental treatment. Blue points represent microcosms in control conditions, yellow in reduced moisture, green in elevated nitrogen, and red in elevated temperature. N = 48 for each point.

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