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Biology and Biochemistry
Chile
2025

D-Index & Metrics

Biology and Biochemistry

D-Index
61
Citations
36126
World Ranking
11083
National Ranking
11

Research.com Recognitions

  • 2025 - Research.com Biology and Biochemistry in Chile Leader Award

Overview

David S. Holmes is affiliated with San Sebastián University in Chile. Their research primarily spans the fields of Environmental Science, Engineering, and Biochemistry, Genetics, and Molecular Biology. Subfields of particular focus include Molecular Biology, Biomedical Engineering, Environmental Chemistry, Ecology, and Water Science and Technology.

The main topics covered in their work are:

  • Metal Extraction and Bioleaching
  • Genomics and Phylogenetic Studies
  • Mine Drainage and Remediation Techniques
  • Microbial Community Ecology and Physiology
  • Minerals Flotation and Separation Techniques
  • RNA and Protein Synthesis Mechanisms
  • Enzyme Structure and Function

Holmes has contributed to multiple research articles in venues frequently publishing their work, including:

  • Frontiers in Microbiology
  • Genes
  • Research in Microbiology
  • bioRxiv (Cold Spring Harbor Laboratory)
  • Microbiology Resource Announcements

Recent papers authored or co-authored by Holmes illustrate a concentration on acidophilic microorganisms and their genomics, such as:

  • Evolution of Predicted Acid Resistance Mechanisms in the Extremely Acidophilic Leptospirillum Genus (2020, Genes)
  • A Large-Scale Genome-Based Survey of Acidophilic Bacteria Suggests That Genome Streamlining Is an Adaption for Life at Low pH (2022, Frontiers in Microbiology)
  • Integrative Genomics Sheds Light on Evolutionary Forces Shaping the Acidithiobacillia Class Acidophilic Lifestyle (2022, Frontiers in Microbiology)
  • Genome-based classification of Acidihalobacter prosperus F5 (=DSM 105917=JCM 32255) as Acidihalobacter yilgarnensis sp. nov. (2020, INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY)
  • Prediction and Inferred Evolution of Acid Tolerance Genes in the Biotechnologically Important Acidihalobacter Genus (2022, Frontiers in Microbiology)

Frequent collaborators in their research include:

  • Eva Vergara
  • Carolina González
  • Gonzalo Neira
  • Diego Cortez
  • Mark Dopson

Holmes's research contributions cover various aspects of microbial ecology and physiology related to acidophilic bacteria, with an evident emphasis on the genomics of these organisms and their adaptations to extreme environments. Their work often intersects with applications relevant to metal extraction, bioleaching processes, and environmental remediation.

Best Publications

  • Observation of a new boson at a mass of 125 GeV with the CMS experiment at the LHC

    S. Chatrchyan;V. Khachatryan;A. M. Sirunyan;A. Tumasyan

  • A rapid boiling method for the preparation of bacterial plasmids

    David S. Holmes;Michael Quigley

  • CMS physics technical design report, volume II: Physics performance

    G. L. Bayatian;S. Chatrchyan;G. Hmayakyan;A. M. Sirunyan

  • Acidithiobacillus ferrooxidans metabolism: from genome sequence to industrial applications

    Jorge Valdés;Inti Pedroso;Raquel Quatrini;Robert J Dodson

  • Preparation, molecular weight, base composition, and secondary structure of giant nuclear ribonucleic acid.

    David S. Holmes;James Bonner

  • Extending the models for iron and sulfur oxidation in the extreme acidophile Acidithiobacillus ferrooxidans.

    Raquel Quatrini;Corinne Appia-Ayme;Corinne Appia-Ayme;Yann Denis;Eugenia Jedlicki

  • CMS physics technical design report: Addendum on high density QCD with heavy ions

    D. d'Enterria;D. d'Enterria;M. Ballintijn;M. Bedjidian;D. Hofman

  • Genomic insights into microbial iron oxidation and iron uptake strategies in extremely acidic environments

    Violaine Bonnefoy;Violaine Bonnefoy;David S. Holmes

  • CMS Physics : Technical Design Report Volume 1: Detector Performance and Software

    G L Bayatian;A Korablev;A Soha;O Sharif

  • Anaerobic Sulfur Metabolism Coupled to Dissimilatory Iron Reduction in the Extremophile Acidithiobacillus ferrooxidans

    Héctor Osorio;Stefanie Mangold;Yann Denis;Ivan Ñancucheo;Ivan Ñancucheo

  • Biological cyanide destruction mediated by microorganisms.

    S. K. Dubey;D. S. Holmes

  • Sulfur Metabolism in the Extreme Acidophile Acidithiobacillus Caldus

    Stefanie Mangold;Jorge Valdés;David S. Holmes;Mark Dopson

  • Insights into the iron and sulfur energetic metabolism of Acidithiobacillus ferrooxidans by microarray transcriptome profiling

    Raquel Quatrini;Corinne Appia-Ayme;Yann Denis;Jeanine Ratouchniak

  • Identification of a gene cluster for the formation of extracellular polysaccharide precursors in the chemolithoautotroph Acidithiobacillus ferrooxidans.

    Marlen Barreto;Marlen Barreto;Eugenia Jedlicki;David S. Holmes

  • Metal resistance in acidophilic microorganisms and its significance for biotechnologies.

    Mark Dopson;David S. Holmes

  • Apparent redundancy of electron transfer pathways via bc1 complexes and terminal oxidases in the extremophilic chemolithoautotrophic Acidithiobacillus ferrooxidans

    G Brasseur;G Levican;V Bonnefoy;D Holmes

  • Performance and operation of the CMS electromagnetic calorimeter

    S. Chatrchyan;V. Khachatryan;A. M. Sirunyan;W. Adam

  • Differential expression of two bc1 complexes in the strict acidophilic chemolithoautotrophic bacterium Acidithiobacillus ferrooxidans suggests a model for their respective roles in iron or sulfur oxidation

    Patrice Bruscella;Corinne Appia-Ayme;Gloria Levicán;Jeanine Ratouchniak

  • Comparative genome analysis of Acidithiobacillus ferrooxidans, A. thiooxidans and A. caldus: Insights into their metabolism and ecophysiology

    Jorge Valdés;Inti Pedroso;Raquel Quatrini;David S. Holmes

  • Commissioning of the CMS experiment and the cosmic run at four tesla

    S. Chatrchyan;V. Khachatryan;A. M. Sirunyan;W. Adam

Frequent Co-Authors

Durmus A. Demir
Durmus A. Demir Sabancı University
Jay Hauser
Jay Hauser University of California, Los Angeles
L. J. Gutay
L. J. Gutay Purdue University West Lafayette
M. R. Adams
M. R. Adams University of Illinois at Chicago

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