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

Additional file 2: of Hologenome analysis of two marine sponges with different microbiomes

Taewoo Ryu (75481)
Loqmane Seridi (640918)
Lucas Moitinho-Silva (3404429)
Matthew Oates (3404447)
Yi Liew (3404423)
Charalampos Mavromatis (3404435)
Xiaolei Wang (139592)
Annika Haywood (3404426)
Feras Lafi (3404420)
Marija Kupresanin (3404438)
Rachid Sougrat (73341)
Majed Alzahrani (3404417)
Emily Giles (3404432)
Yanal Ghosheh (3404441)
Celia Schunter (3309225)
Sebastian Baumgarten (540834)
Michael Berumen (3271287)
Xin Gao (14001)
Manuel Aranda (170438)
Sylvain Foret (3404444)
Julian Gough (19646)
Christian Voolstra (44817)
Ute Hentschel (480362)
Timothy Ravasi (155072)

February 2016

Sources and statistics of sequences used for the hologenome analysis. (XLSX 19Â kb

Additional file 2: 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

The cluster dendrogram of intestinal contents derived from nine diet sub-stages. Cluster dendrogram ...

Additional file 2: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

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

June 2017

Number of genomes associated to each environment and to each number of environments. (XLSX 5Â kb

Additional file 1 of Host species and habitat shape fish-associated bacterial communities: phylosymbiosis between fish and their microbiome

Javad Sadeghi (3607727)
Subba Rao Chaganti (9230470)
Timothy B. Johnson (17415763)
Daniel D. Heath (8027447)

November 2023

Additional file 1: Figure S1. Relative abundance of bacterial community composition presented at the...

Additional file 4: Table S5. of Symbiosis and microbiome flexibility in calcifying benthic foraminifera of the Great Barrier Reef

Martina Prazeres (3858889)
Tracy Ainsworth (3858892)
T. Roberts (3858895)
John Pandolfi (3613373)
William Leggat (126445)

March 2017

Absolute and relative abundances of OTUs identified, and main bacterial taxa associated with A. lobi...

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 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 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 1: Table S1. of Optimization of DNA extraction for advancing coral microbiota investigations

Laura Weber (3729010)
Emelia DeForce (1317990)
Amy Apprill (543222)

February 2017

Provides information about the species designation, collection site, collection depth, and colony na...

Additional file 1: of The skin microbiome of vertebrates

Ashley Ross (3401822)
Aline Rodrigues Hoffmann (507237)
Josh Neufeld (3401243)

May 2019

Table S1. Molecular studies investigating the non-human vertebrate skin microbiome. Only studies tha...

Additional file 1: Table S1. of Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform

Madhura Castelino (3688216)
Stephen Eyre (424544)
John Moat (3688213)
Graeme Fox (457146)
Paul Martin (7160)
Pauline Ho (3053385)
Mathew Upton (198752)
Anne Barton (23499)

January 2017

Comparison of the relative abundance (%) of bacterial mock community at the classification level of ...

Additional file 16: of The transcriptome of metamorphosing flatfish

Ricardo Alves (3266523)
Ana Gomes (1479244)
Kurt Stueber (3406541)
Mbaye Tine (335358)
M. Thorne (3406544)
H. Smáradóttir (3406550)
Richard Reinhard (3406553)
M. Clark (2309017)
Ivar Rønnestad (2622340)
Deborah Power (3406547)

May 2016

In-house skin-specific database enriched with candidate genes involved in vertebrate skin developmen...

Additional file 2: of The transcriptome of metamorphosing flatfish

Ricardo Alves (3266523)
Ana Gomes (1479244)
Kurt Stueber (3406541)
Mbaye Tine (335358)
M. Thorne (3406544)
H. Smáradóttir (3406550)
Richard Reinhard (3406553)
M. Clark (2309017)
Ivar Rønnestad (2622340)
Deborah Power (3406547)

May 2016

Annotation of the skin transcriptome. Contig ID, transcript name, number of GOs and their descriptio...

Additional file 11: of A longitudinal assessment of host-microbe-parasite interactions resolves the zebrafish gut microbiomeâs link to Pseudocapillaria tomentosa infection and pathology

Christopher Gaulke (6262133)
Mauricio Martins (6262136)
Virginia Watral (462334)
Ian Humphreys (6262139)
Sean Spagnoli (4903969)
Michael Kent (849960)
Thomas Sharpton (6262145)

January 2019

Figure S5. Temporal variation in microbiome diversity in exposed and unexposed fish. Nonmetric multi...

Additional file 8: of The highly variable microbiota associated to intestinal mucosa correlates with growth and hypoxia resistance of sea bass, Dicentrarchus labrax, submitted to different nutritional histories

François-Joël Gatesoupe (3433490)
Christine Huelvan (3433493)
Nicolas Le Bayon (3433484)
Hervé Le Delliou (748150)
Lauriane Madec (3433496)
Olivier Mouchel (691187)
Patrick Quazuguel (748151)
David Mazurais (748148)
José-Luis Zambonino-Infante (3433487)

November 2016

Mean relative abundance of phylogenetic clusters among Bacteroidetes and Spirochaetae with significa...

Additional file 2: of Hologenome analysis of two marine sponges with different microbiomes

Taewoo Ryu (75481)
Loqmane Seridi (640918)
Lucas Moitinho-Silva (3404429)
Matthew Oates (3404447)
Yi Liew (3404423)
Charalampos Mavromatis (3404435)
Xiaolei Wang (139592)
Annika Haywood (3404426)
Feras Lafi (3404420)
Marija Kupresanin (3404438)
Rachid Sougrat (73341)
Majed Alzahrani (3404417)
Emily Giles (3404432)
Yanal Ghosheh (3404441)
Celia Schunter (3309225)
Sebastian Baumgarten (540834)
Michael Berumen (3271287)
Xin Gao (14001)
Manuel Aranda (170438)
Sylvain Foret (3404444)
Julian Gough (19646)
Christian Voolstra (44817)
Ute Hentschel (480362)
Timothy Ravasi (155072)

February 2016

Sources and statistics of sequences used for the hologenome analysis. (XLSX 19Â kb

Additional file 2: 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

The cluster dendrogram of intestinal contents derived from nine diet sub-stages. Cluster dendrogram ...

Additional file 2: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

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

June 2017

Number of genomes associated to each environment and to each number of environments. (XLSX 5Â kb

Additional file 1 of Host species and habitat shape fish-associated bacterial communities: phylosymbiosis between fish and their microbiome

Javad Sadeghi (3607727)
Subba Rao Chaganti (9230470)
Timothy B. Johnson (17415763)
Daniel D. Heath (8027447)

November 2023

Additional file 1: Figure S1. Relative abundance of bacterial community composition presented at the...

Additional file 4: Table S5. of Symbiosis and microbiome flexibility in calcifying benthic foraminifera of the Great Barrier Reef

Martina Prazeres (3858889)
Tracy Ainsworth (3858892)
T. Roberts (3858895)
John Pandolfi (3613373)
William Leggat (126445)

March 2017

Absolute and relative abundances of OTUs identified, and main bacterial taxa associated with A. lobi...

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 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 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 1: Table S1. of Optimization of DNA extraction for advancing coral microbiota investigations

Laura Weber (3729010)
Emelia DeForce (1317990)
Amy Apprill (543222)

February 2017

Provides information about the species designation, collection site, collection depth, and colony na...

Additional file 1: of The skin microbiome of vertebrates

Ashley Ross (3401822)
Aline Rodrigues Hoffmann (507237)
Josh Neufeld (3401243)

May 2019

Table S1. Molecular studies investigating the non-human vertebrate skin microbiome. Only studies tha...

Additional file 1: Table S1. of Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform

Madhura Castelino (3688216)
Stephen Eyre (424544)
John Moat (3688213)
Graeme Fox (457146)
Paul Martin (7160)
Pauline Ho (3053385)
Mathew Upton (198752)
Anne Barton (23499)

January 2017

Comparison of the relative abundance (%) of bacterial mock community at the classification level of ...

Additional file 16: of The transcriptome of metamorphosing flatfish

Ricardo Alves (3266523)
Ana Gomes (1479244)
Kurt Stueber (3406541)
Mbaye Tine (335358)
M. Thorne (3406544)
H. Smáradóttir (3406550)
Richard Reinhard (3406553)
M. Clark (2309017)
Ivar Rønnestad (2622340)
Deborah Power (3406547)

May 2016

In-house skin-specific database enriched with candidate genes involved in vertebrate skin developmen...

Additional file 2: of The transcriptome of metamorphosing flatfish

Ricardo Alves (3266523)
Ana Gomes (1479244)
Kurt Stueber (3406541)
Mbaye Tine (335358)
M. Thorne (3406544)
H. Smáradóttir (3406550)
Richard Reinhard (3406553)
M. Clark (2309017)
Ivar Rønnestad (2622340)
Deborah Power (3406547)

May 2016

Annotation of the skin transcriptome. Contig ID, transcript name, number of GOs and their descriptio...

Additional file 11: of A longitudinal assessment of host-microbe-parasite interactions resolves the zebrafish gut microbiomeâs link to Pseudocapillaria tomentosa infection and pathology

Christopher Gaulke (6262133)
Mauricio Martins (6262136)
Virginia Watral (462334)
Ian Humphreys (6262139)
Sean Spagnoli (4903969)
Michael Kent (849960)
Thomas Sharpton (6262145)

January 2019

Figure S5. Temporal variation in microbiome diversity in exposed and unexposed fish. Nonmetric multi...

Additional file 8: of The highly variable microbiota associated to intestinal mucosa correlates with growth and hypoxia resistance of sea bass, Dicentrarchus labrax, submitted to different nutritional histories

François-Joël Gatesoupe (3433490)
Christine Huelvan (3433493)
Nicolas Le Bayon (3433484)
Hervé Le Delliou (748150)
Lauriane Madec (3433496)
Olivier Mouchel (691187)
Patrick Quazuguel (748151)
David Mazurais (748148)
José-Luis Zambonino-Infante (3433487)

November 2016

Mean relative abundance of phylogenetic clusters among Bacteroidetes and Spirochaetae with significa...

Additional file 2: of Hologenome analysis of two marine sponges with different microbiomes

Taewoo Ryu (75481)
Loqmane Seridi (640918)
Lucas Moitinho-Silva (3404429)
Matthew Oates (3404447)
Yi Liew (3404423)
Charalampos Mavromatis (3404435)
Xiaolei Wang (139592)
Annika Haywood (3404426)
Feras Lafi (3404420)
Marija Kupresanin (3404438)
Rachid Sougrat (73341)
Majed Alzahrani (3404417)
Emily Giles (3404432)
Yanal Ghosheh (3404441)
Celia Schunter (3309225)
Sebastian Baumgarten (540834)
Michael Berumen (3271287)
Xin Gao (14001)
Manuel Aranda (170438)
Sylvain Foret (3404444)
Julian Gough (19646)
Christian Voolstra (44817)
Ute Hentschel (480362)
Timothy Ravasi (155072)

February 2016

Sources and statistics of sequences used for the hologenome analysis. (XLSX 19Â kb

Additional file 2: 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

The cluster dendrogram of intestinal contents derived from nine diet sub-stages. Cluster dendrogram ...

Additional file 2: of Relating genomic characteristics to environmental preferences and ubiquity in different microbial taxa

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

June 2017

Number of genomes associated to each environment and to each number of environments. (XLSX 5Â kb

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

Abstract

Extracted data

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

Abstract

Extracted data

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