Supplementary Material
Endophytes-assisted biocontrol: novel insights in ecology and the mode of action of Paenibacillus
Daria Rybakova1#, Tomislav Cernava1#, Martina Köberl1,2, Stefan Liebminger3, Mohammad Etemadi1,2, and Gabriele Berg1*
1
Institute of Environmental Biotechnology, Graz University of Technology, Petersgasse 12, 8010 Graz, Austria
2
Austrian Centre of Industrial Biotechnology (ACIB GmbH), Petersgasse 14, 8010 Graz, Austria
3
Roombiotic GmbH, Petersgasse 12, 8010 Graz, Austria
# These authors contributed equally to this work
Supplementary Table S1 Relative abundances of Paenibacillus spp. within selected biomes
Biome
Sample
Sequencing
Country
Method
Plant rhizosphere
Plant phyllosphere
Number of
Abundance of
Study
Additional
Analyzed
Paenibacillus
Information
Sequences
spp. [%]1
(Accession #)
Matricaria chamomilla
IBMS
Egypt
28,900,898
2.05
Köberl et al.²
npa
Solanum distichum
IBMS
Egypt
29,684,017
0.70
Köberl et al.²
npa
Eruca sativa
IBMS
Austria
23,192,621
1.03
Erlacher et al.²
npa
Oryza sativa
PBMS
Philippines
1,026,982
1.33
Knief et al. (2011)
4449956.3a
Arabidopsis thaliana
PBMS
Spain
1,098,311
0.00
Delmotte et al. (2009)
4447810.3a
Eruca sativa
IBMS
Austria
26,534,191
3.04
Erlacher et al.²
npa
Oryza sativa
PBMS
Philippines
2,213,945
4.06
Knief et al. (2011)
4450328.3a
Soil
Lichen thalli
Indoor microbiome
Agricultural soil
IBMS
USA
17,442,824
0.25
Smith et al.3
4508940.3a
Home garden soil
IBMS
Austria
19,031,310
1.62
Erlacher et al.²
npa
Desert soil
PBAS
Egypt
19,244
0.19
Köberl et al. (2011)
npa
Desert farming soil
PBAS
Egypt
33,384
1.40
Köberl et al. (2011)
npa
Lobaria pulmonaria
IBMS
Austria
76,310,051
0.01
Grube et al. (2015)
4530091.3a
Cladonia furcata
IBMS
Austria
21,711,407
0.02
Cernava et al.²
npa
Peltigera polydactylon
IBMS
Austria
19,711,397
0.04
Cernava et al.²
npa
Clean room (ISO-8)
PBAS
Germany
1,895
4.00
Moissl-Eichinger et al.
npa
(2015)
1
Clean room (100K)
IBAS
USA
35,674
0.10
Mahnert et al.3
PRJEB8763b
Clean room surroundings
IBAS
USA
35,880
2.00
Mahnert et al.3
PRJEB8763b
Abundances are based on Greengenes database assignments within all bacterial rRNA gene sequences in the specified sample
² The authors had exclusive access to these datasets to extract required taxonomic information for this review
3
Unpublished study with data publicly available
a
MG-RAST ID (http://metagenomics.anl.gov/)
b
ENA primary accession (http://www.ebi.ac.uk/ena)
IBMS: Illumina-based metagenome sequencing, PBMS: Pyrosequencing-based metagenome sequencing, PBAS: Pyrosequencing-based amplicon sequencing, IBAS: Illuminabased amplicon sequencing, npa: dataset was not publicly available
Supplementary Figure S1 Phylogram of 16S rRNA gene sequences from the type strains of 116 species belonging to the genus Paenibacillus.