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Biology and Biochemistry

D-Index
60
Citations
63529
World Ranking
11638
National Ranking
5007

Overview

Todd Z. DeSantis is a researcher primarily affiliated with Second Genome in the United States. Their work spans the fields of Biochemistry, Genetics and Molecular Biology, and Medicine, with a focus on Molecular Biology, Ecology, Food Science, Epidemiology, and Genetics as subfields.

The main topics of their research include gut microbiota and health, genomics and phylogenetic studies, probiotics and fermented foods, microbial community ecology and physiology, inflammatory bowel disease, Clostridium difficile and Clostridium perfringens research, as well as cancer research and treatments.

The following recent papers are among those authored or coauthored by Todd Z. DeSantis:

  • Greengenes2 unifies microbial data in a single reference tree, 2023, Nature Biotechnology
  • Colonic microbiota is associated with inflammation and host epigenomic alterations in inflammatory bowel disease, 2020, Nature Communications
  • Piphillin predicts metagenomic composition and dynamics from DADA2-corrected 16S rDNA sequences, 2020, BMC Genomics
  • Multi-angle meta-analysis of the gut microbiome in Autism Spectrum Disorder: a step toward understanding patient subgroups, 2022, Scientific Reports
  • Greengenes2 enables a shared data universe for microbiome studies, 2022, bioRxiv (Cold Spring Harbor Laboratory)

Todd Z. DeSantis frequently collaborates with several coauthors, including Shoko Iwai, Karim Dabbagh, Nicole Narayan, Erica Rutherford, and Jill Desnoyer.

Publications by Todd Z. DeSantis are often featured in journals and venues such as Gastroenterology, bioRxiv (Cold Spring Harbor Laboratory), Cancer Research, Nature Biotechnology, and BMC Genomics.

Best Publications

  • Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB

    Todd Z. DeSantis;Philip Hugenholtz;Neils Larsen;Mark Rojas

  • Structure, function and diversity of the healthy human microbiome

    Curtis Huttenhower;Curtis Huttenhower;Dirk Gevers;Rob Knight;Rob Knight;Sahar Abubucker

  • An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

    Daniel McDonald;Morgan N Price;Julia Goodrich;Julia Goodrich;Eric P Nawrocki

  • PyNAST: a flexible tool for aligning sequences to a template alignment

    J. Gregory Caporaso;Kyle Bittinger;Frederic D. Bushman;Todd Z. DeSantis

  • Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

    Brian J. Haas;Dirk Gevers;Ashlee M. Earl;Mike Feldgarden

  • Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria

    Rodrigo Mendes;Marco Kruijt;Irene de Bruijn;Ester Dekkers

  • A framework for human microbiome research

    Barbara A. Methé;Karen E. Nelson;Mihai Pop;Heather H. Creasy

  • Deep-sea oil plume enriches indigenous oil-degrading bacteria.

    Terry C. Hazen;Eric A. Dubinsky;Todd Z. DeSantis;Gary L. Andersen

  • NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes

    T. Z. DeSantis;Philip Hugenholtz;K. Keller;Eoin L. Brodie

  • Chronic kidney disease alters intestinal microbial flora

    Nosratola D. Vaziri;Jakk Wong;Madeleine Pahl;Yvette M. Piceno

  • Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma.

    Yvonne J. Huang;Craig E. Nelson;Eoin L. Brodie;Todd Z. DeSantis

  • Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.

    Pelin Yilmaz;Pelin Yilmaz;Renzo Kottmann;Dawn Field;Rob Knight;Rob Knight

  • Urban aerosols harbor diverse and dynamic bacterial populations

    Eoin L. Brodie;Todd Z. DeSantis;Jordan P. Moberg Parker;Ingrid X. Zubietta

  • Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers

    Zongzhi Liu;Todd Z. DeSantis;Gary L. Andersen;Rob Knight

  • Environmental genomics reveals a single-species ecosystem deep within Earth.

    Dylan Chivian;Eoin L. Brodie;Eric J. Alm;David E. Culley

  • Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys.

    Jeffrey J Werner;Omry Koren;Philip Hugenholtz;Todd Z DeSantis

  • Expansion of urease- and uricase-containing, indole- and p-cresol-forming and contraction of short-chain fatty acid-producing intestinal microbiota in ESRD.

    Jakk Wong;Yvette M. Piceno;Todd Z. DeSantis;Madeleine Pahl

  • High-Density Universal 16S rRNA Microarray Analysis Reveals Broader Diversity than Typical Clone Library When Sampling the Environment

    Todd Z. DeSantis;Eoin L. Brodie;Jordan P. Moberg;Ingrid X. Zubieta

  • Design of 16S rRNA gene primers for 454 pyrosequencing of the human foregut microbiome

    Carlos W Nossa;William E Oberdorf;Liying Yang;Jørn A Aas;Jørn A Aas

  • Application of a High-Density Oligonucleotide Microarray Approach To Study Bacterial Population Dynamics during Uranium Reduction and Reoxidation

    Eoin L. Brodie;Eoin L. Brodie;Todd Z. DeSantis;Dominique C. Joyner;Seung M. Baek

Frequent Co-Authors

Gary L. Andersen
Gary L. Andersen Lawrence Berkeley National Laboratory
Eoin L. Brodie
Eoin L. Brodie Lawrence Berkeley National Laboratory
Terry C. Hazen
Terry C. Hazen University of Tennessee at Knoxville
Rob Knight
Rob Knight University of California, San Diego
Patrick S. G. Chain
Patrick S. G. Chain Los Alamos National Laboratory
Philip Hugenholtz
Philip Hugenholtz University of Queensland
Ruth E. Ley
Ruth E. Ley Max Planck Society
George M. Weinstock
George M. Weinstock The Jackson Laboratory
Nikos C. Kyrpides
Nikos C. Kyrpides Joint Genome Institute
Richard A. Gibbs
Richard A. Gibbs Baylor College of Medicine

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