Luis M Rodriguez-R

Affiliations

Department of Microbiology and Digital Science Center (DiSC), University of Innsbruck, Innrain 15 / 01-05, Innsbruck 6020, Austria.

Publications (30)

Development of the SeqCode: A proposed nomenclatural code for uncultivated prokaryotes with DNA sequences as type.

Systematic and applied microbiology

Avec: William B Whitman , Maria Chuvochina , Brian P Hedlund , Philip Hugenholtz , Konstantinos T Konstantinidis , Alison E Murray , Marike Palmer , Donovan H Parks , Alexander J Probst , Anna-Louise Reysenbach , Luis M Rodriguez-R , Ramon Rossello-Mora , Iain Sutcliffe , Stephanus N Venter

Iterative subtractive binning of freshwater chronoseries metagenomes identifies over 400 novel species and their ecologic preferences.

Environmental microbiology

Avec: Luis M Rodriguez-R , Despina Tsementzi , Chengwei Luo , Konstantinos T Konstantinidis

Ecogenomic characterization of widespread, closely-related SAR11 clades of the freshwater genus "Candidatus Fonsibacter" and proposal of Ca. Fonsibacter lacus sp. nov.

Systematic and applied microbiology

Avec: Despina Tsementzi , Luis M Rodriguez-R , Carlos A Ruiz-Perez , Alexandra Meziti , Janet K Hatt , Konstantinos T Konstantinidis

ROCker Models for Reliable Detection and Typing of Short-Read Sequences Carrying β-Lactamase Genes.

mSystems

Avec: Si-Yu Zhang , Brittany Suttner , Luis M Rodriguez-R , Luis H Orellana , Roth E Conrad , Fang Liu , Jessica L Rowell , Hattie E Webb , Amanda J Williams-Newkirk , Andrew Huang , Konstantinos T Konstantinidis

Why and how to use the SeqCode.

mLife

Avec: William B Whitman , Maria Chuvochina , Brian P Hedlund , Konstantinos T Konstantinidis , Marike Palmer , Luis M Rodriguez-R , Iain Sutcliffe , Fengping Wang

GSearch: ultra-fast and scalable genome search by combining K-mer hashing with hierarchical navigable small world graphs.

Nucleic acids research

Avec: Jianshu Zhao , Jean Pierre Both , Luis M Rodriguez-R , Konstantinos T Konstantinidis

Quantifying the changes in genetic diversity within sequence-discrete bacterial populations across a spatial and temporal riverine gradient.

The ISME journal

Avec: Alexandra Meziti , Despina Tsementzi , Luis M Rodriguez-R , Janet K Hatt , Hera Karayanni , Konstantinos A Kormas , Konstantinos T Konstantinidis

The Reliability of Metagenome-Assembled Genomes (MAGs) in Representing Natural Populations: Insights from Comparing MAGs against Isolate Genomes Derived from the Same Fecal Sample.

Applied and environmental microbiology

Avec: Alexandra Meziti , Luis M Rodriguez-R , Janet K Hatt , Angela Peña-Gonzalez , Karen Levy , Konstantinos T Konstantinidis

Beach sand oil spills select for generalist microbial populations.

The ISME journal

Avec: Patrick Heritier-Robbins , Smruthi Karthikeyan , Janet K Hatt , Minjae Kim , Markus Huettel , Joel E Kostka , Konstantinos T Konstantinidis , Luis M Rodriguez-R

An ANI gap within bacterial species that advances the definitions of intra-species units.

mBio

Avec: Luis M Rodriguez-R , Roth E Conrad , Tomeu Viver , Dorian J Feistel , Blake G Lindner , Stephanus N Venter , Luis H Orellana , Rudolf Amann , Ramon Rossello-Mora , Konstantinos T Konstantinidis

SeqCode: a nomenclatural code for prokaryotes described from sequence data.

Nature microbiology

Avec: Brian P Hedlund , Maria Chuvochina , Philip Hugenholtz , Konstantinos T Konstantinidis , Alison E Murray , Marike Palmer , Donovan H Parks , Alexander J Probst , Anna-Louise Reysenbach , Luis M Rodriguez-R , Ramon Rossello-Mora , Iain C Sutcliffe , Stephanus N Venter , William B Whitman

Metagenomics as a Public Health Risk Assessment Tool in a Study of Natural Creek Sediments Influenced by Agricultural and Livestock Runoff: Potential and Limitations.

Applied and environmental microbiology

Avec: Brittany Suttner , Eric R Johnston , Luis H Orellana , Luis M Rodriguez-R , Janet K Hatt , Diana Carychao , Michelle Q Carter , Michael B Cooley , Konstantinos T Konstantinidis

CRISPR elements provide a new framework for the genealogy of the citrus canker pathogen Xanthomonas citri pv. citri.

BMC genomics

Avec: Kwanho Jeong , Alejandra Muñoz-Bodnar , Nathalia Arias Rojas , Lucie Poulin , Luis Miguel Rodriguez-R , Lionel Gagnevin , Christian Vernière , Olivier Pruvost , Ralf Koebnik

New insights from the biogas microbiome by comprehensive genome-resolved metagenomics of nearly 1600 species originating from multiple anaerobic digesters.

Biotechnology for biofuels

Avec: Stefano Campanaro , Laura Treu , Luis M Rodriguez-R , Adam Kovalovszki , Ryan M Ziels , Irena Maus , Xinyu Zhu , Panagiotis G Kougias , Arianna Basile , Gang Luo , Andreas Schlüter , Konstantinos T Konstantinidis , Irini Angelidaki

Comparative Genomics Identifies Conserved and Variable TAL Effectors in African Strains of the Cotton Pathogen

Phytopathology

Avec: Alvaro L Pérez-Quintero , Luis M Rodriguez-R , Sara Cuesta-Morrondo , Eliška Hakalová , Daniela Betancurt-Anzola , Laura Carolina Camelo Valera , Luis Alberto Chica Cardenas , Luisa Matiz-Céron , Jonathan M Jacobs , Veronica Roman-Reyna , Alejandro Reyes Muñoz , Adriana Jimena Bernal Giraldo , Ralf Koebnik

Andean soil-derived lignocellulolytic bacterial consortium as a source of novel taxa and putative plastic-active enzymes.

Systematic and applied microbiology

Avec: Laura Díaz-García , Maria Chuvochina , Golo Feuerriegel , Boyke Bunk , Cathrin Spröer , Wolfgang R Streit , Luis M Rodriguez-R , Jörg Overmann , Diego Javier Jiménez

Quis custodiet ipsos custodes? A call for community participation in the governance of the SeqCode.

Systematic and applied microbiology

Avec: Iain C Sutcliffe , Luis M Rodriguez-R , Stephanus N Venter , William B Whitman

Options and considerations for validation of prokaryotic names under the SeqCode.

Systematic and applied microbiology

Avec: Stephanus N Venter , Luis M Rodriguez-R , Maria Chuvochina , Marike Palmer , Philip Hugenholtz , Emma T Steenkamp

Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes.

Scientific reports

Avec: Phuongan Dam , Luis M Rodriguez-R , Chengwei Luo , Janet Hatt , Despina Tsementzi , Konstantinos T Konstantinidis , Eberhard O Voit

Genome repository of oil systems: An interactive and searchable database that expands the catalogued diversity of crude oil-associated microbes.

Environmental microbiology

Avec: Smruthi Karthikeyan , Luis M Rodriguez-R , Patrick Heritier-Robbins , Janet K Hatt , Markus Huettel , Joel E Kostka , Konstantinos T Konstantinidis

"Candidatus Macondimonas diazotrophica", a novel gammaproteobacterial genus dominating crude-oil-contaminated coastal sediments.

The ISME journal

Avec: Smruthi Karthikeyan , Luis M Rodriguez-R , Patrick Heritier-Robbins , Minjae Kim , Will A Overholt , John C Gaby , Janet K Hatt , Jim C Spain , Ramon Rosselló-Móra , Markus Huettel , Joel E Kostka , Konstantinos T Konstantinidis

Transcriptomic and rRNA:rDNA Signatures of Environmental versus Enteric Enterococcus faecalis Isolates under Oligotrophic Freshwater Conditions.

Microbiology spectrum

Avec: Brittany Suttner , Minjae Kim , Eric R Johnston , Luis H Orellana , Carlos A Ruiz-Perez , Luis M Rodriguez-R , Janet K Hatt , Joe Brown , Jorge W Santo Domingo , Konstantinos T Konstantinidis

Toward shotgun metagenomic approaches for microbial source tracking sewage spills based on laboratory mesocosms.

Water research

Avec: Blake G Lindner , Brittany Suttner , Kevin J Zhu , Roth E Conrad , Luis M Rodriguez-R , Janet K Hatt , Joe Brown , Konstantinos T Konstantinidis

The type VI secretion system of Xanthomonas phaseoli pv. manihotis is involved in virulence and in vitro motility.

BMC microbiology

Avec: Nathaly Andrea Montenegro Benavides , Alejandro Alvarez B , Mario L Arrieta-Ortiz , Luis Miguel Rodriguez-R , David Botero , Javier Felipe Tabima , Luisa Castiblanco , Cesar Trujillo , Silvia Restrepo , Adriana Bernal

RecruitPlotEasy: An Advanced Read Recruitment Plot Tool for Assessing Metagenomic Population Abundance and Genetic Diversity.

Frontiers in bioinformatics

Avec: Kenji Gerhardt , Carlos A Ruiz-Perez , Luis M Rodriguez-R , Roth E Conrad , Konstantinos T Konstantinidis

Naming the unnamed: over 65,000

International journal of systematic and evolutionary microbiology

Avec: Mark J Pallen , Luis M Rodriguez-R , Nabil-Fareed Alikhan

Higher pathogen load in children from Mozambique vs. USA revealed by comparative fecal microbiome profiling.

ISME communications

Avec: Minjae Kim , Luis M Rodriguez-R , Janet K Hatt , Osman Kayali , Rassul Nalá , Anne L Dunlop , Patricia A Brennan , Elizabeth Corwin , Alicia K Smith , Joe Brown , Konstantinos T Konstantinidis

Novel bacterial taxa in a minimal lignocellulolytic consortium and their potential for lignin and plastics transformation.

ISME communications

Avec: Carlos Andrés Díaz Rodríguez , Laura Díaz-García , Boyke Bunk , Cathrin Spröer , Katherine Herrera , Natalia A Tarazona , Luis M Rodriguez-R , Jörg Overmann , Diego Javier Jiménez

A user's guide to the bioinformatic analysis of shotgun metagenomic sequence data for bacterial pathogen detection.

International journal of food microbiology

Avec: Blake G Lindner , Kenji Gerhardt , Dorian J Feistel , Luis M Rodriguez-R , Janet K Hatt , Konstantinos T Konstantinidis

Towards estimating the number of strains that make up a natural bacterial population.

Nature communications

Avec: Tomeu Viver , Roth E Conrad , Luis M Rodriguez-R , Ana S Ramírez , Stephanus N Venter , Jairo Rocha-Cárdenas , Mercè Llabrés , Rudolf Amann , Konstantinos T Konstantinidis , Ramon Rossello-Mora

Réseau de co-auteurs

Konstantinos T Konstantinidis 22 collaborations

Janet K Hatt 11 collaborations

Stephanus N Venter 6 collaborations

Maria Chuvochina 5 collaborations

Roth E Conrad 5 collaborations

William B Whitman 4 collaborations

Marike Palmer 4 collaborations

Ramon Rossello-Mora 4 collaborations

Despina Tsementzi 4 collaborations

Brittany Suttner 4 collaborations

Luis H Orellana 4 collaborations

Minjae Kim 4 collaborations

Brian P Hedlund 3 collaborations

Philip Hugenholtz 3 collaborations

Carlos A Ruiz-Perez 3 collaborations

Alexandra Meziti 3 collaborations

Patrick Heritier-Robbins 3 collaborations

Smruthi Karthikeyan 3 collaborations

Markus Huettel 3 collaborations

Joel E Kostka 3 collaborations

Blake G Lindner 3 collaborations

Joe Brown 3 collaborations

Alison E Murray 2 collaborations

Donovan H Parks 2 collaborations

Alexander J Probst 2 collaborations

Anna-Louise Reysenbach 2 collaborations

Iain Sutcliffe 2 collaborations

Chengwei Luo 2 collaborations

Tomeu Viver 2 collaborations

Dorian J Feistel 2 collaborations

Rudolf Amann 2 collaborations

Iain C Sutcliffe 2 collaborations

Eric R Johnston 2 collaborations

Luis Miguel Rodriguez-R 2 collaborations

Ralf Koebnik 2 collaborations

Laura Díaz-García 2 collaborations

Boyke Bunk 2 collaborations

Cathrin Spröer 2 collaborations

Jörg Overmann 2 collaborations

Diego Javier Jiménez 2 collaborations

Kenji Gerhardt 2 collaborations

Si-Yu Zhang 1 collaboration

Fang Liu 1 collaboration

Jessica L Rowell 1 collaboration

Hattie E Webb 1 collaboration

Amanda J Williams-Newkirk 1 collaboration

Andrew Huang 1 collaboration

Fengping Wang 1 collaboration

Jianshu Zhao 1 collaboration

Jean Pierre Both 1 collaboration

Hera Karayanni 1 collaboration

Konstantinos A Kormas 1 collaboration

Angela Peña-Gonzalez 1 collaboration

Karen Levy 1 collaboration

Diana Carychao 1 collaboration

Michelle Q Carter 1 collaboration

Michael B Cooley 1 collaboration

Kwanho Jeong 1 collaboration

Alejandra Muñoz-Bodnar 1 collaboration

Nathalia Arias Rojas 1 collaboration

Lucie Poulin 1 collaboration

Lionel Gagnevin 1 collaboration

Christian Vernière 1 collaboration

Olivier Pruvost 1 collaboration

Stefano Campanaro 1 collaboration

Laura Treu 1 collaboration

Adam Kovalovszki 1 collaboration

Ryan M Ziels 1 collaboration

Irena Maus 1 collaboration

Xinyu Zhu 1 collaboration

Panagiotis G Kougias 1 collaboration

Arianna Basile 1 collaboration

Gang Luo 1 collaboration

Andreas Schlüter 1 collaboration

Irini Angelidaki 1 collaboration

Alvaro L Pérez-Quintero 1 collaboration

Sara Cuesta-Morrondo 1 collaboration

Eliška Hakalová 1 collaboration

Daniela Betancurt-Anzola 1 collaboration

Laura Carolina Camelo Valera 1 collaboration

Luis Alberto Chica Cardenas 1 collaboration

Luisa Matiz-Céron 1 collaboration

Jonathan M Jacobs 1 collaboration

Veronica Roman-Reyna 1 collaboration

Alejandro Reyes Muñoz 1 collaboration

Adriana Jimena Bernal Giraldo 1 collaboration

Golo Feuerriegel 1 collaboration

Wolfgang R Streit 1 collaboration

Emma T Steenkamp 1 collaboration

Phuongan Dam 1 collaboration

Janet Hatt 1 collaboration

Eberhard O Voit 1 collaboration

Will A Overholt 1 collaboration

John C Gaby 1 collaboration

Jim C Spain 1 collaboration

Ramon Rosselló-Móra 1 collaboration

Jorge W Santo Domingo 1 collaboration

Kevin J Zhu 1 collaboration

Nathaly Andrea Montenegro Benavides 1 collaboration

Alejandro Alvarez B 1 collaboration

Mario L Arrieta-Ortiz 1 collaboration

David Botero 1 collaboration

Javier Felipe Tabima 1 collaboration

Luisa Castiblanco 1 collaboration

Cesar Trujillo 1 collaboration

Silvia Restrepo 1 collaboration

Adriana Bernal 1 collaboration

Mark J Pallen 1 collaboration

Nabil-Fareed Alikhan 1 collaboration

Osman Kayali 1 collaboration

Rassul Nalá 1 collaboration

Anne L Dunlop 1 collaboration

Patricia A Brennan 1 collaboration

Elizabeth Corwin 1 collaboration

Alicia K Smith 1 collaboration

Carlos Andrés Díaz Rodríguez 1 collaboration

Katherine Herrera 1 collaboration

Natalia A Tarazona 1 collaboration

Ana S Ramírez 1 collaboration

Jairo Rocha-Cárdenas 1 collaboration

Mercè Llabrés 1 collaboration