Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Maximum likelihood phylogeny and pairwise sequence identity heatmap of Pasteuria spp. taxonomic reference sequences used in primer design and Pasteuria spp. ZOTU taxonomic assignment.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques: Sequencing

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Map of distribution of the most abundant Pasteuria spp. ZOTUs across both NSIS2 (circles) and ESFN (triangles) datasets. Plot points are colored by ZOTU and sized as a function of the total number of merged read pairs recovered for that ZOTU µl −1 of product added to the final pool from the corresponding sample.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: NDMS ordination plot of NSIS2 Pasteuria spp. community composition. Points are colored by soil horizon where L = litter; H = humus; O = peaty material formed under wet, anaerobic conditions; and A = mineral horizon formed at or near the surface showing accumulation and incorporation of organic matter. Points are sized by the total number of merged read pairs µl −1 of PCR product added to the final pool from the corresponding sample. Stress = 0.245235.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Environmental variables with a statistically significant relationship to Pasteuria spp. community ordination before or after Benjamini-Hochberg correction.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Spearman’s rank correlation of soil properties with statistically significant correlation to Pasteuria spp. community composition.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: The top three most abundant Pasteuria spp. ZOTUs in the ESFN dataset and respective metazoan ZOTU Spearman’s rank correlations which were statistically significant after Benjamini-Hochberg correction.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: (A) 400x magnification Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by red arrow). (B) 1000x magnification of Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by red arrow). (C) 1000x magnification of free living non-parasitic nematode recovered from ESFN soil with several Pasteuria spp. endospores attached (positions indicated by red arrows). (D) 1000x magnification of fluorescence image of Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by blue arrow), showing anti- Pasteuria penetrans antibody recognition.

Article Snippet: The pairwise percentage identity of reference Pasteuria spp. sequences in the aligned region of the 16S rRNA gene ranged from a low of 84.7% ( P. ramosa vs P. usgae ) to a high of 99.3% ( P. penetrans to Pasteuria HcP) with an average of 95% identity between all reference sequences.

Techniques: Fluorescence

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Maximum likelihood phylogeny and pairwise sequence identity heatmap of Pasteuria spp. taxonomic reference sequences used in primer design and Pasteuria spp. ZOTU taxonomic assignment.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques: Sequencing

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Map of distribution of the most abundant Pasteuria spp. ZOTUs across both NSIS2 (circles) and ESFN (triangles) datasets. Plot points are colored by ZOTU and sized as a function of the total number of merged read pairs recovered for that ZOTU µl −1 of product added to the final pool from the corresponding sample.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: NDMS ordination plot of NSIS2 Pasteuria spp. community composition. Points are colored by soil horizon where L = litter; H = humus; O = peaty material formed under wet, anaerobic conditions; and A = mineral horizon formed at or near the surface showing accumulation and incorporation of organic matter. Points are sized by the total number of merged read pairs µl −1 of PCR product added to the final pool from the corresponding sample. Stress = 0.245235.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Environmental variables with a statistically significant relationship to Pasteuria spp. community ordination before or after Benjamini-Hochberg correction.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Spearman’s rank correlation of soil properties with statistically significant correlation to Pasteuria spp. community composition.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: The top three most abundant Pasteuria spp. ZOTUs in the ESFN dataset and respective metazoan ZOTU Spearman’s rank correlations which were statistically significant after Benjamini-Hochberg correction.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: (A) 400x magnification Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by red arrow). (B) 1000x magnification of Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by red arrow). (C) 1000x magnification of free living non-parasitic nematode recovered from ESFN soil with several Pasteuria spp. endospores attached (positions indicated by red arrows). (D) 1000x magnification of fluorescence image of Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by blue arrow), showing anti- Pasteuria penetrans antibody recognition.

Article Snippet: However, 100% of merged read pairs in the ESFN sample set and 93% of merged read pairs in the NSIS2 dataset were at least 90% identical to Pasteuria spp. reference sequences.

Techniques: Fluorescence

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Maximum likelihood phylogeny and pairwise sequence identity heatmap of Pasteuria spp. taxonomic reference sequences used in primer design and Pasteuria spp. ZOTU taxonomic assignment.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques: Sequencing

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Map of distribution of the most abundant Pasteuria spp. ZOTUs across both NSIS2 (circles) and ESFN (triangles) datasets. Plot points are colored by ZOTU and sized as a function of the total number of merged read pairs recovered for that ZOTU µl −1 of product added to the final pool from the corresponding sample.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: NDMS ordination plot of NSIS2 Pasteuria spp. community composition. Points are colored by soil horizon where L = litter; H = humus; O = peaty material formed under wet, anaerobic conditions; and A = mineral horizon formed at or near the surface showing accumulation and incorporation of organic matter. Points are sized by the total number of merged read pairs µl −1 of PCR product added to the final pool from the corresponding sample. Stress = 0.245235.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Environmental variables with a statistically significant relationship to Pasteuria spp. community ordination before or after Benjamini-Hochberg correction.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: Spearman’s rank correlation of soil properties with statistically significant correlation to Pasteuria spp. community composition.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: The top three most abundant Pasteuria spp. ZOTUs in the ESFN dataset and respective metazoan ZOTU Spearman’s rank correlations which were statistically significant after Benjamini-Hochberg correction.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques:

Journal: Frontiers in Plant Science

Article Title: Parallel Microbial Ecology of Pasteuria and Nematode Species in Scottish Soils

doi: 10.3389/fpls.2019.01763

Figure Lengend Snippet: (A) 400x magnification Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by red arrow). (B) 1000x magnification of Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by red arrow). (C) 1000x magnification of free living non-parasitic nematode recovered from ESFN soil with several Pasteuria spp. endospores attached (positions indicated by red arrows). (D) 1000x magnification of fluorescence image of Pratylenchus spp. recovered from ESFN soil with Pasteuria spp. endospore attached (position indicated by blue arrow), showing anti- Pasteuria penetrans antibody recognition.

Article Snippet: Of these ZOTUs 75 (50.7%) were at least 90% similar to curated Pasteuria spp. reference sequences and only one sequence returned a best hit as low as 92% similarity.

Techniques: Fluorescence