Additional file 5: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Additional file 5: of Species classifier choice is a key consideration when analysing low-complexity food microbiome data

Aaron Walsh (4978487)
Fiona Crispie (166390)
Orla O’Sullivan (166383)
Laura Finnegan (4978490)
Marcus Claesson (3421388)
Paul Cotter (802473)

March 2018

Figure S3. Species detected ≥ 2.5% relative abundance in kefir samples using each species classifier...

Additional file 1: Table S1. of Wild eel microbiome reveals that skin mucus of fish could be a natural niche for aquatic mucosal pathogen evolution

Miguel Carda-Diéguez (4777416)
Rohit Ghai (20856)
Francisco Rodríguez-Valera (4777419)
Carmen Amaro (677074)

December 2017

Metagenomes used to detect MGE. Table S2. General data for each metagenome and alpha diversity. Tabl...

Additional file 3: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

Marta Cobo-SimĂłn (4216825)
Javier Tamames (23643)

June 2017

Plots relating the average genome size of every genus to their average number of 16S rRNA genes. All...

Additional file 4: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S7. Summary of selected protein families (Pfam) based on rpstblastx algorithm. (PDF 410 kb

Additional file 2: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S5. a Prokaryotic OTUs distribution in samples. b Methanotropic OTUs distribution in samples (...

Additional file 6: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S9. Results of the adonis analysis for U. australis and U.vulgaris prokaryotic community based...

Additional file 1: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S1. Source and identification of studies used for comparative meta-analyses in Fig. 1a, b and ...

Additional file 1 of Deciphering the gut microbiome of grass carp through multi-omics approach

Ming Li (91180)
Hui Liang (503201)
Hongwei Yang (1367979)
Qianwen Ding (11998214)
Rui Xia (523256)
Jie Chen (5892)
Wenhao Zhou (2855447)
Yalin Yang (765546)
Zhen Zhang (86004)
Yuanyuan Yao (1644640)
Chao Ran (306432)
Zhigang Zhou (2371921)

January 2024

Additional file 1: Supplementary Figure S1. Experimental design and rarefaction curve analysis of mi...

Additional file 5: of The variation profile of intestinal microbiota in blunt snout bream (Megalobrama amblycephala) during feeding habit transition

Jin Wei (424761)
Xianwu Guo (33484)
Han Liu (288039)
Yuanyuan Chen (165812)
Weimin Wang (145168)

September 2018

Rank-abundance curves of OTUs derived from nine diet sub-stages. Rank abundance distribution curves ...

Additional file 1: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

Marta Cobo-Simón (4216756)
Javier Tamames (23643)

June 2017

Procedure for obtaining associations between taxa and environments. Only the genera significantly re...

Additional file 6: of The variation profile of intestinal microbiota in blunt snout bream (Megalobrama amblycephala) during feeding habit transition

Jin Wei (424761)
Xianwu Guo (33484)
Han Liu (288039)
Yuanyuan Chen (165812)
Weimin Wang (145168)

September 2018

Rank-abundance curves of OTUs derived from the three diet groups. Rank abundance distribution curves...

Additional file 1: Table S1. of Environment shapes the fecal microbiome of invasive carp species

Jessica Eichmiller (3242331)
Matthew Hamilton (79352)
Christopher Staley (2124148)
Michael Sadowsky (3403913)
Peter Sorensen (3242340)

August 2016

Percentage abundance of OTUs at the family level greater than 1Â % of total reads. (DOCX 14Â kb

Additional file 2: of Skin microbiome of coral reef fish is highly variable and driven by host phylogeny and diet

Marlène Chiarello (5684870)
Jean-Christophe Auguet (383456)
Yvan Bettarel (761792)
Corinne Bouvier (14672)
Thomas Claverie (698010)
Nicholas Graham (815122)
Fabien Rieuvilleneuve (5684876)
Elliot Sucré (5684882)
Thierry Bouvier (158560)
Sébastien Villéger (152254)

August 2018

Supplementary material containing OTU table, list of corresponding reference sequence for each OTU, ...

Number of species and abundances

Hilmers, Torben
Friess, Nicolas
Bässler, Claus
Heurich, Marco
Brandl, Roland
Pretzsch, Hans
Seidl, Rupert
Müller, Jörg

July 2018

This file contains the number of species and abundances from 23 taxonomic lineages on each study plo...

Additional file 6: Table S2. of Prey preference follows phylogeny: evolutionary dietary patterns within the marine gastropod group Cladobranchia (Gastropoda: Heterobranchia: Nudibranchia)

Jessica Goodheart (4539097)
Adam Bazinet (4539103)
Ăngel ValdĂŠs (4539100)
Allen Collins (270694)
Michael Cummings (673809)

October 2017

Trinity-assembly details, including number of transcript fragments and total number of bases assembl...

Additional file 5: of Species classifier choice is a key consideration when analysing low-complexity food microbiome data

Aaron Walsh (4978487)
Fiona Crispie (166390)
Orla O’Sullivan (166383)
Laura Finnegan (4978490)
Marcus Claesson (3421388)
Paul Cotter (802473)

March 2018

Figure S3. Species detected ≥ 2.5% relative abundance in kefir samples using each species classifier...

Additional file 1: Table S1. of Wild eel microbiome reveals that skin mucus of fish could be a natural niche for aquatic mucosal pathogen evolution

Miguel Carda-Diéguez (4777416)
Rohit Ghai (20856)
Francisco Rodríguez-Valera (4777419)
Carmen Amaro (677074)

December 2017

Metagenomes used to detect MGE. Table S2. General data for each metagenome and alpha diversity. Tabl...

Additional file 3: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

Marta Cobo-SimĂłn (4216825)
Javier Tamames (23643)

June 2017

Plots relating the average genome size of every genus to their average number of 16S rRNA genes. All...

Additional file 4: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S7. Summary of selected protein families (Pfam) based on rpstblastx algorithm. (PDF 410 kb

Additional file 2: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S5. a Prokaryotic OTUs distribution in samples. b Methanotropic OTUs distribution in samples (...

Additional file 6: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S9. Results of the adonis analysis for U. australis and U.vulgaris prokaryotic community based...

Additional file 1: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Dagmara Sirová (5130959)
Jiří Bárta (547462)
Karel Šimek (176502)
Thomas Posch (444623)
Jiří Pech (6093119)
James Stone (3432734)
Jakub Borovec (2663791)
Lubomír Adamec (6093122)
Jaroslav Vrba (6093125)

December 2018

Table S1. Source and identification of studies used for comparative meta-analyses in Fig. 1a, b and ...

Additional file 1 of Deciphering the gut microbiome of grass carp through multi-omics approach

Ming Li (91180)
Hui Liang (503201)
Hongwei Yang (1367979)
Qianwen Ding (11998214)
Rui Xia (523256)
Jie Chen (5892)
Wenhao Zhou (2855447)
Yalin Yang (765546)
Zhen Zhang (86004)
Yuanyuan Yao (1644640)
Chao Ran (306432)
Zhigang Zhou (2371921)

January 2024

Additional file 1: Supplementary Figure S1. Experimental design and rarefaction curve analysis of mi...

Additional file 5: of The variation profile of intestinal microbiota in blunt snout bream (Megalobrama amblycephala) during feeding habit transition

Jin Wei (424761)
Xianwu Guo (33484)
Han Liu (288039)
Yuanyuan Chen (165812)
Weimin Wang (145168)

September 2018

Rank-abundance curves of OTUs derived from nine diet sub-stages. Rank abundance distribution curves ...

Additional file 1: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

Marta Cobo-Simón (4216756)
Javier Tamames (23643)

June 2017

Procedure for obtaining associations between taxa and environments. Only the genera significantly re...

Additional file 6: of The variation profile of intestinal microbiota in blunt snout bream (Megalobrama amblycephala) during feeding habit transition

Jin Wei (424761)
Xianwu Guo (33484)
Han Liu (288039)
Yuanyuan Chen (165812)
Weimin Wang (145168)

September 2018

Rank-abundance curves of OTUs derived from the three diet groups. Rank abundance distribution curves...

Additional file 1: Table S1. of Environment shapes the fecal microbiome of invasive carp species

Jessica Eichmiller (3242331)
Matthew Hamilton (79352)
Christopher Staley (2124148)
Michael Sadowsky (3403913)
Peter Sorensen (3242340)

August 2016

Percentage abundance of OTUs at the family level greater than 1Â % of total reads. (DOCX 14Â kb

Additional file 2: of Skin microbiome of coral reef fish is highly variable and driven by host phylogeny and diet

Marlène Chiarello (5684870)
Jean-Christophe Auguet (383456)
Yvan Bettarel (761792)
Corinne Bouvier (14672)
Thomas Claverie (698010)
Nicholas Graham (815122)
Fabien Rieuvilleneuve (5684876)
Elliot Sucré (5684882)
Thierry Bouvier (158560)
Sébastien Villéger (152254)

August 2018

Supplementary material containing OTU table, list of corresponding reference sequence for each OTU, ...

Number of species and abundances

Hilmers, Torben
Friess, Nicolas
Bässler, Claus
Heurich, Marco
Brandl, Roland
Pretzsch, Hans
Seidl, Rupert
Müller, Jörg

July 2018

This file contains the number of species and abundances from 23 taxonomic lineages on each study plo...

Additional file 6: Table S2. of Prey preference follows phylogeny: evolutionary dietary patterns within the marine gastropod group Cladobranchia (Gastropoda: Heterobranchia: Nudibranchia)

Jessica Goodheart (4539097)
Adam Bazinet (4539103)
Ăngel ValdĂŠs (4539100)
Allen Collins (270694)
Michael Cummings (673809)

October 2017

Trinity-assembly details, including number of transcript fragments and total number of bases assembl...

Additional file 5: of Species classifier choice is a key consideration when analysing low-complexity food microbiome data

Aaron Walsh (4978487)
Fiona Crispie (166390)
Orla O’Sullivan (166383)
Laura Finnegan (4978490)
Marcus Claesson (3421388)
Paul Cotter (802473)

March 2018

Figure S3. Species detected ≥ 2.5% relative abundance in kefir samples using each species classifier...

Additional file 1: Table S1. of Wild eel microbiome reveals that skin mucus of fish could be a natural niche for aquatic mucosal pathogen evolution

Miguel Carda-Diéguez (4777416)
Rohit Ghai (20856)
Francisco Rodríguez-Valera (4777419)
Carmen Amaro (677074)

December 2017

Metagenomes used to detect MGE. Table S2. General data for each metagenome and alpha diversity. Tabl...

Additional file 3: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

Marta Cobo-SimĂłn (4216825)
Javier Tamames (23643)

June 2017

Plots relating the average genome size of every genus to their average number of 16S rRNA genes. All...

Additional file 5: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Abstract

Extracted data

Additional file 5: of Hunters or farmers? Microbiome characteristics help elucidate the diet composition in an aquatic carnivorous plant

Abstract

Extracted data

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