Estimating coverage in metagenomic data sets and why it matters

par Rodriguez-R, Luis M, Konstantinidis, Konstantinos T
Publié dans ISME J (2014)

MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences

par Luo, Chengwei, Rodriguez-R, Luis M., Konstantinidis, Konstantinos T.
Publié 2014

ROCker: accurate detection and quantification of target genes in short-read metagenomic data sets by modeling sliding-window bitscores

par Orellana, Luis H., Rodriguez-R, Luis M., Konstantinidis, Konstantinos T.
Publié dans Nucleic Acids Res (2017)

Strengths and Limitations of 16S rRNA Gene Amplicon Sequencing in Revealing Temporal Microbial Community Dynamics

par Poretsky, Rachel, Rodriguez-R, Luis M., Luo, Chengwei, Tsementzi, Despina, Konstantinidis, Konstantinos T.
Publié 2014

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries

par Jain, Chirag, Rodriguez-R, Luis M., Phillippy, Adam M., Konstantinidis, Konstantinos T., Aluru, Srinivas
Publié dans Nat Commun (2018)

Reply to: “Re-evaluating the evidence for a universal genetic boundary among microbial species”

par Rodriguez-R, Luis M., Jain, Chirag, Conrad, Roth E., Aluru, Srinivas, Konstantinidis, Konstantinos T.
Publié dans Nat Commun (2021)

Shifts in bacterial communities of two caribbean reef-building coral species affected by white plague disease

par Cárdenas, Anny, Rodriguez-R, Luis M, Pizarro, Valeria, Cadavid, Luis F, Arévalo-Ferro, Catalina
Publié 2012

Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity

par Rodriguez-R, Luis M., Gunturu, Santosh, Tiedje, James M., Cole, James R., Konstantinidis, Konstantinos T.
Publié dans mSystems (2018)

Microbial community successional patterns in beach sands impacted by the Deepwater Horizon oil spill

par Rodriguez-R, Luis M, Overholt, Will A, Hagan, Christopher, Huettel, Markus, Kostka, Joel E, Konstantinidis, Konstantinos T
Publié dans ISME J (2015)

Genomes-based phylogeny of the genus Xanthomonas

par Rodriguez-R, Luis M, Grajales, Alejandro, Arrieta-Ortiz, Mario L, Salazar, Camilo, Restrepo, Silvia, Bernal, Adriana
Publié 2012

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

par Meziti, Alexandra, Rodriguez-R, Luis M., Hatt, Janet K., Peña-Gonzalez, Angela, Levy, Karen, Konstantinidis, Konstantinos T.
Publié dans Appl Environ Microbiol (2021)

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

par Dam, Phuongan, Rodriguez-R, Luis M., Luo, Chengwei, Hatt, Janet, Tsementzi, Despina, Konstantinidis, Konstantinos T., Voit, Eberhard O.
Publié dans Sci Rep (2020)

An Improved Method for TAL Effectors DNA-Binding Sites Prediction Reveals Functional Convergence in TAL Repertoires of Xanthomonas oryzae Strains

par Pérez-Quintero, Alvaro L., Rodriguez-R, Luis M., Dereeper, Alexis, López, Camilo, Koebnik, Ralf, Szurek, Boris, Cunnac, Sebastien
Publié 2013

How Much Do rRNA Gene Surveys Underestimate Extant Bacterial Diversity?

par Rodriguez-R, Luis M., Castro, Juan C., Kyrpides, Nikos C., Cole, James R., Tiedje, James M., Konstantinidis, Konstantinos T.
Publié dans Appl Environ Microbiol (2018)

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

par Meziti, Alexandra, Tsementzi, Despina, Rodriguez-R, Luis M., Hatt, Janet K., Karayanni, Hera, Kormas, Konstantinos A., Konstantinidis, Konstantinos T.
Publié dans ISME J (2018)

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level

par Rodriguez-R, Luis M, Gunturu, Santosh, Harvey, William T, Rosselló-Mora, Ramon, Tiedje, James M, Cole, James R, Konstantinidis, Konstantinos T
Publié dans Nucleic Acids Res (2018)

imGLAD: accurate detection and quantification of target organisms in metagenomes

par Castro, Juan C., Rodriguez-R, Luis M., Harvey, William T., Weigand, Michael R., Hatt, Janet K., Carter, Michelle Q., Konstantinidis, Konstantinos T.
Publié dans PeerJ (2018)

Biofilms on Hospital Shower Hoses: Characterization and Implications for Nosocomial Infections

par Soto-Giron, Maria J., Rodriguez-R, Luis M., Luo, Chengwei, Elk, Michael, Ryu, Hodon, Hoelle, Jill, Santo Domingo, Jorge W., Konstantinidis, Konstantinos T.
Publié dans Appl Environ Microbiol (2016)

An RNAi in silico approach to find an optimal shRNA cocktail against HIV-1

par Méndez-Ortega, María C, Restrepo, Silvia, Rodríguez-R, Luis M, Pérez, Iván, Mendoza, Juan C, Martínez, Andrés P, Sierra, Roberto, Rey-Benito, Gloria J
Publié 2010

Draft Genome Sequence of Bacillus cereus LA2007, a Human-Pathogenic Isolate Harboring Anthrax-Like Plasmids

par Pena-Gonzalez, Angela, Marston, Chung K., Rodriguez-R, Luis M., Kolton, Cari B., Garcia-Diaz, Julia, Theppote, Amanda, Frace, Michael, Konstantinidis, Konstantinos T., Hoffmaster, Alex R.
Publié dans Genome Announc (2017)