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List of works by Sergios-Orestis Kolokotronis

1232. Phylogenomics of Enterococcus faecium From South America: Revisiting Worldwide VRE Population Structure

A functional phylogenomic view of the seed plants

scientific article

Barcoding bushmeat: molecular identification of Central African and South American harvested vertebrates

Bats, Primates, and the Evolutionary Origins and Diversification of Mammalian Gammaherpesviruses

scientific article

Bayesian estimation of substitution rates from ancient DNA sequences with low information content

scientific article published on 4 February 2011

Biogeography and taxonomy of extinct and endangered monk seals illuminated by ancient DNA and skull morphology

scientific article published on 14 May 2014

Changes in the Mitogenome Announcement manuscript category

scientific article published on 19 February 2015

Clusterflock: a flocking algorithm for isolating congruent phylogenomic datasets

scientific article

Combining genetic and distributional approaches to sourcing introduced species: a case study on the Nile monitor (Varanus niloticus) in Florida ⬇️

scientific article

Concatenated analysis sheds light on early metazoan evolution and fuels a modern "urmetazoon" hypothesis

scientific article

DNA barcodes reveal species-specific mercury levels in tuna sushi that pose a health risk to consumers

scientific article

Detection of mitochondrial insertions in the nucleus (NuMts) of Pleistocene and modern muskoxen

scientific article (publication date: 27 April 2007)

Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic

scientific article published on 01 October 2020

Effects of male sterility on reproductive traits in gynodioecious plants: a meta-analysis

article

Elevated substitution rates estimated from ancient DNA sequences

scientific article (publication date: 22 December 2007)

Emergence of the epidemic methicillin-resistant Staphylococcus aureus strain USA300 coincides with horizontal transfer of the arginine catabolic mobile element and speG-mediated adaptations for survival on skin

scientific article

Episodic Diversifying Selection Shaped the Genomes of Gibbon Ape Leukemia Virus and Related Gammaretroviruses.

scientific article published on 4 December 2015

Erratum for Alfano et al., Episodic Diversifying Selection Shaped the Genomes of Gibbon Ape Leukemia Virus and Related Gammaretroviruses.

scientific article published on 28 March 2016

Erratum to: Wild Bird’s-Eye View of Influenza Virus A(H1N1) Phylogenetic Evolution

scholarly article by Antoinette J. Piaggio et al published September 2010 in EcoHealth

Evolution of hypervirulence by a MRSA clone through acquisition of a transposable element

scientific article

Evolution of the indoor biome

scientific article published on 11 March 2015

Evolutionary Analyses and Natural Selection of Betaine-Homocysteine S-Methyltransferase (BHMT) and BHMT2 Genes

scientific article (publication date: 2015)

Evolutionary dynamics of endogenous feline leukemia virus proliferation among species of the domestic cat lineage

scientific article

Fine-scale genetic analysis of the exploited Nile monitor (Varanus niloticus) in Sahelian Africa

scientific article

Genetic identification of mammalian meal source in dung beetle gut contents

scientific article published on 12 March 2016

Genetic variation at hair length candidate genes in elephants and the extinct woolly mammoth

scientific article

Genetic variation in avocado stem weevils Copturus aguacatae (Coleoptera: Curculionidae) in Mexico

scientific article

Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius

scientific article published on 2 February 2016

Genomic Epidemiology of Vancomycin-Resistant Enterococcus faecium (VREfm) in Latin America: Revisiting The Global VRE Population Structure

scientific article published on 27 March 2020

Genomic epidemiology of Lineage 4 Mycobacterium tuberculosis subpopulations in New York City and New Jersey, 1999-2009.

scientific article

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics

scientific article

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics

article

Historical mammal extinction on Christmas Island (Indian Ocean) correlates with introduced infectious disease

scientific article published in 2008

Historical mitochondrial diversity in African leopards (Panthera pardus) revealed by archival museum specimens

scientific article

Host tropism determination by convergent evolution of immunological evasion in the Lyme disease system

scientific article published on 29 July 2021

In the wake of invasion: tracing the historical biogeography of the South American cricetid radiation (Rodentia, Sigmodontinae) ⬇️

scientific article (publication date: 2014)

Integrating multiple lines of evidence to better understand the evolutionary divergence of humpback dolphins along their entire distribution range: a new dolphin species in Australian waters?

scientific article

Knowledge, Attitudes and Practices About Zika Virus Infection Among Women of Reproductive Age in Central Brooklyn, New York City, USA

scientific article published in 2023

Microbiome changes through ontogeny of a tick pathogen vector

scientific article published on 2 September 2016

Mitochondrial DNA announces new fast-track manuscript category:Mitogenome Announcements

article by Rob DeSalle & Sergios-Orestis Kolokotronis published January 2009 in Mitochondrial DNA

Mitochondrial genomes reveal an explosive radiation of extinct and extant bears near the Miocene-Pliocene boundary

scientific article

Modeling the eradication of invasive mammals using the sterile male technique

Modern Methods for Delineating Metagenomic Complexity

scientific article

Molecular data from contemporary and historical collections reveal a complex story of cryptic diversification in the Varanus (Polydaedalus) niloticus Species Group

scientific article

Molecular surveillance of low pathogenic avian influenza viruses in wild birds across the United States: inferences from the hemagglutinin gene

scientific article

Mycobacterial phylogenomics: an enhanced method for gene turnover analysis reveals uneven levels of gene gain and loss among species and gene families

scientific article

Negative Purifying Selection Drives Prion and Doppel Protein Evolution

scientific article published on 20 July 2014

No Observed Effect of Landscape Fragmentation on Pathogen Infection Prevalence in Blacklegged Ticks (Ixodes scapularis) in the Northeastern United States

scientific article published on 2 October 2015

Outer surface protein polymorphisms linked to host-spirochete association in Lyme borreliae

scientific article published on 27 February 2019

Parallel Epidemics of Community-Associated Methicillin-Resistant Staphylococcus aureus USA300 Infection in North and South America

scientific article published on 5 June 2015

Phylogenetic and evolutionary analyses of St. Louis encephalitis virus genomes

scientific article

Phylogenomic Diversity Elucidates Mechanistic Insights into Lyme Borreliae-Host Association

scientific article published on 30 August 2022

Pre-detection history of extensively drug-resistant tuberculosis in KwaZulu-Natal, South Africa

scientific article published on 28 October 2019

Random Addition Concatenation Analysis: a novel approach to the exploration of phylogenomic signal reveals strong agreement between core and shell genomic partitions in the cyanobacteria

scientific article

Reconciling apparent conflicts between mitochondrial and nuclear phylogenies in African elephants

scientific article

Selective constraint and adaptive potential of West Nile virus within and among naturally infected avian hosts and mosquito vectors.

scientific article published in January 2018

Testing the effectiveness of an international conservation agreement: marketplace forensics and CITES caviar trade regulation

scientific article (publication date: 2012)

The Diploblast-Bilateria Sister hypothesis: parallel revolution of a nervous systems may have been a simple step

scientific article published on September 2009

The Fish Barcode of Life (FISH-BOL) special issue

article

The MexBOL initiative

scientific article published in December 2010

The genome of the Wollemi pine, a critically endangered “living fossil” unchanged since the Cretaceous, reveals extensive ancient transposon activity

The impact of outgroup choice and missing data on major seed plant phylogenetics using genome-wide EST data

scientific article (publication date: 2 June 2009)

The mitogenome of the bed bug Cimex lectularius (Hemiptera: Cimicidae).

scientific article

The real maccoyii: identifying tuna sushi with DNA barcodes--contrasting characteristic attributes and genetic distances

scientific article

To beat or not to beat a tick: comparison of DNA extraction methods for ticks (Ixodes scapularis).

scientific article

Transient influence of blood meal and natural environment on blacklegged tick bacterial communities

scientific article published on 31 January 2018

Whole genome sequencing identifies bacterial factors affecting transmission of multidrug-resistant tuberculosis in a high-prevalence setting

article

Wild bird's-eye view of influenza virus A(H1N1) phylogenetic evolution

scientific article published in September 2009

Zoonotic viruses associated with illegally imported wildlife products

scientific article

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