Ecosyste.ms: Papers

10.3389/fcimb.2017.00050

Whole Genome Sequence and Phylogenetic Analysis Show Helicobacter pylori Strains from Latin America Have Followed a Unique Evolution Pathway
Cited by: 44
Author(s): Zilia Y Muñoz-Ramirez, Alfonso Méndez‐Tenorio, Ikuko Kato, María Mercedes Bravo, Cosmeri Rizzato, Kaisa Thorell, Roberto Torres, Francisco Avilés-Jiménez, Margarita Camorlinga, Federico Canzian, Javier Torres
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2021.723706

High Genetic Diversity but Absence of Population Structure in Local Chickens of Sri Lanka Inferred by Microsatellite Markers
Cited by: 3
Author(s): Amali Malshani Samaraweera, R.P. Liyanage, Mohamed N.M. Ibrahim, A.M. Okeyo, Jin‐Hee Han, Pradeepa Silva
Software Mentions: 1
Published: almost 3 years ago

10.1038/ismej.2016.88

Association mapping reveals novel serpentine adaptation gene clusters in a population of symbiotic Mesorhizobium
Cited by: 66
Author(s): Stephanie S. Porter, Peter L. Chang, Christopher A. Conow, Joseph P. Dunham, Maren Friesen
Software Mentions: 1
Published: about 8 years ago

10.3389/fmicb.2016.00788

Global Emergence and Dissemination of Enterococci as Nosocomial Pathogens: Attack of the Clones?
Cited by: 223
Author(s): Ana M. Guzmán Prieto, Willem van Schaik, Malbert R. C. Rogers, Teresa M. Coque, Fernando Baquero, Jukka Corander, Rob J. L. Willems
Software Mentions: 1
Published: over 8 years ago

10.3389/fmicb.2018.02167

Phylogenetic Relatedness Among Plasmids Harbored by Campylobacter jejuni and Campylobacter coli Isolated From Retail Meats
Cited by: 19
Author(s): Daya Marasini, Anand B. Karki, Mark A. Buchheim, Mohamed K. Fakhr
Software Mentions: 1
Published: about 6 years ago

10.1186/1471-2148-12-191

Reconstructing the history of a fragmented and heavily exploited red deer population using ancient and contemporary DNA
Cited by: 23
Author(s): Jørgen Rosvold, Knut Røed, Anne Karin Hufthammer, Reidar Andersen, Hans K. Stenøien
Software Mentions: 1
Published: over 12 years ago

10.1186/1471-2180-11-104

Evolution in an oncogenic bacterial species with extreme genome plasticity: Helicobacter pyloriEast Asian genomes
Cited by: 134
Author(s): Mikihiko Kawai, Yoshikazu Furuta, Koji Yahara, Takeshi Go Tsuru, Koichiro Oshima, Nobuhiko Handa, Noriko Takahashi, Masaru Yoshida, Takeshi Azuma, Masahira Hattori, Ikuo Uchiyama, Ichizo Kobayashi
Software Mentions: 1
Published: over 13 years ago

10.1007/s00285-017-1197-3

Expansion of gene clusters, circular orders, and the shortest Hamiltonian path problem
Cited by: 1
Author(s): Sonja J. Prohaska, Sarah J. Berkemer, Fabian Gärtner, Thomas Gatter, Nancy Retzlaff, Christian Höner zu Siederdissen, Peter F. Stadler
Software Mentions: 1
Published: almost 7 years ago

10.1186/1471-2164-15-23

Genome sequencing and comparative analysis of three Chlamydia pecorum strains associated with different pathogenic outcomes
Cited by: 38
Author(s): Michelle Sait, Morag Livingstone, Ewan M. Clark, Nick Wheelhouse, Lucy Spalding, Bryan Markey, Simone Magnino, F. A. Lainson, Garry Myers, David Longbottom
Software Mentions: 1
Published: over 10 years ago

10.1002/bies.201300096

Networks of lexical borrowing and lateral gene transfer in language and genome evolution
Cited by: 29
Author(s): Johann‐Mattis List, Shijulal Nelson-Sathi, Hans Geisler, William Martin
Software Mentions: 1
Published: over 10 years ago

10.1093/bioinformatics/btx740

SPECTRE: a suite of phylogenetic tools for reticulate evolution
Cited by: 8
Author(s): Sarah Bastkowski, Daniel Mapleson, Andreas Spillner, Taoyang Wu, Monika Balvočiūtė, Vincent Moulton
Software Mentions: 1
Published: almost 7 years ago

10.3390/life5010604

The Origin and Evolution of Ribonucleotide Reduction
Cited by: 60
Author(s): Daniel Lundin, Gustav Berggren, D.T. Logan, Britt‐Marie Sjöberg
Software Mentions: 1
Published: over 9 years ago

10.3389/fmicb.2017.01790

New Insights into the Diversity of the Genus Faecalibacterium
Cited by: 48
Author(s): Leandro de Jesus Benevides, Sriti Burman, Rebeca Martin, Véronique Robert, Muriel Thomas, Sylvie Miquel, Florian Chain, Harry Sokol, Luis Bermúdez Humarán, Mark Morrison, Philippe Langella, Vasco Azevedo, Jean-Marc Châtel, Siomar de Castro Soares
Software Mentions: 1
Published: almost 7 years ago

10.1186/s12862-016-0773-2

Patterns of rapid diversification in heteroploid Knautia sect. Trichera (Caprifoliaceae, Dipsacoideae), one of the most intricate taxa of the European flora
Cited by: 17
Author(s): Božo Frajman, Ivana Rešetnik, Marjan Niketić, Friedrich Ehrendorfer
Software Mentions: 1
Published: almost 8 years ago

10.1186/1471-2164-12-425

Genome sequencing reveals diversification of virulence factor content and possible host adaptation in distinct subpopulations of Salmonella enterica
Cited by: 124
Author(s): Henk C. den Bakker, Andrea I. Moreno Switt, Gregory Govoni, Craig Cummings, M.L. Ranieri, Lovorka Degoricija, Karin Hoelzer, Lorraine D. Rodriguez‐Rivera, Stephanie Brown, Elena Bolchacova, Manohar R. Furtado, Martin Wiedmann
Software Mentions: 1
Published: about 13 years ago

10.1080/23802359.2018.1484261

Extraction of DNA from micro-tissue for bat species identification
Cited by: 2
Author(s): Thaís Fernandes Mendonça Mota, Thomaz Mansini Carrenho Fabrin, Luciano Seraphim Gasques, Henrique Ortêncio Filho, Alberto José Prioli, Sônia Maria Alves Pinto Prioli
Software Mentions: 1
Published: about 6 years ago

10.1016/j.ympev.2013.09.005

Outgroup effects on root position and tree topology in the AFLP phylogeny of a rapidly radiating lineage of cichlid fish
Cited by: 24
Author(s): Paul C. Kirchberger, Kristina M. Sefc, Christian Sturmbauer, Stephan Koblmüller
Software Mentions: 1
Published: over 10 years ago

10.1186/1743-422X-9-19

The HIV-1 epidemic in Bolivia is dominated by subtype B and CRF12_BF "family" strains
Cited by: 6
Author(s): Monick Lindenmeyer Guimarães, Ketty G Velarde-Dunois, David Segurondo, Mariza G. Morgado
Software Mentions: 1
Published: over 12 years ago

10.1186/1743-422X-9-156

Clinical, epidemiological and molecular features of the HIV-1 subtype C and recombinant forms that are circulating in the city of São Paulo, Brazil
Cited by: 9
Author(s): Rosana Alcalde, Monick Lindenmeyer Guimarães, Alberto J. S. Duarte, Jorge Casseb
Software Mentions: 1
Published: about 12 years ago

10.3389/fmicb.2017.01659

Adaptation of Surface-Associated Bacteria to the Open Ocean: A Genomically Distinct Subpopulation of Phaeobacter gallaeciensis Colonizes Pacific Mesozooplankton
Cited by: 17
Author(s): Heike M. Freese, Anika Methner, Jörg Overmann
Software Mentions: 1
Published: about 7 years ago

10.1186/s12864-021-07477-6

Whole genome de novo sequencing and comparative genomic analyses suggests that Chlamydia psittaci strain 84/2334 should be reclassified as Chlamydia abortus species
Cited by: 10
Author(s): David Longbottom, Morag Livingstone, Paolo Ribeca, Delphine Sylvie Anne Beeckman, Arie van der Ende, Yvonne Pannekoek, Daisy Vanrompay
Software Mentions: 1
Published: over 3 years ago

10.3897/zookeys.568.6696

Phylogenetic radiation of the greenbottle flies (Diptera, Calliphoridae, Luciliinae)
Cited by: 23
Author(s): Kirstin A. Williams, Jennifer Lamb, Martin H. Villet
Software Mentions: 1
Published: over 8 years ago

10.1186/1756-3305-6-342

Genetic diversity and structure in Leishmania infantum populations from southeastern Europe revealed by microsatellite analysis
Cited by: 33
Author(s): Evi Gouzelou, Christos Haralambous, Μαρία Αντωνίου, Vasiliki Christodoulou, Franjo Martinković, Tatjana Živičnjak, Despina Smirlis, Francine Pratlong, Jean-Pierre Dedet, Yusuf Özbel, Seray Töz, W Presber, Gabriele Schönian, Ketty Soteriadou
Software Mentions: 1
Published: almost 11 years ago

10.1186/s13071-015-0837-y

Genetic homogeneity among Leishmania (Leishmania) infantum isolates from dog and human samples in Belo Horizonte Metropolitan Area (BHMA), Minas Gerais, Brazil
Cited by: 7
Author(s): Thaís Almeida Marques da Silva, Luciana I. Gomes, Edward Oliveira, Wendel Coura‐Vital, Letícia de Azevedo Silva, Fabiano Sviatopolk-Mirsky Pais, Henrique Gama Ker, Alexandre Barbosa Reis, Ana Rabello, Mariângela Carneiro
Software Mentions: 1
Published: over 9 years ago

10.1136/sextrans-2016-052781

Genomic analysis of urogenital and rectal<i>Neisseria meningitidis</i>isolates reveals encapsulated hyperinvasive meningococci and coincident multidrug-resistant gonococci
Cited by: 26
Author(s): Odile B. Harrison, Kevin N. Cole, Joanna Peters, Fiona V Cresswell, Gillian Dean, David W Eyre, John R. Paul, Martin C. J. Maiden
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.4916

The use of chloroplast genome sequences to solve phylogenetic incongruences in<i>Polystachya</i>Hook (Orchidaceae Juss)
Cited by: 12
Author(s): Narjara Lopes de Abreu, Ruy José Válka Alves, Sergio Cardoso, Yann Bertrand, Filipe de Sousa, Climbiê Ferreira Hall, Bernard E. Pfeil, Alexandre Antonelli
Software Mentions: 1
Published: over 6 years ago

10.1186/s12864-016-3221-1

Arabidopsis thaliana population analysis reveals high plasticity of the genomic region spanning MSH2, AT3G18530 and AT3G18535 genes and provides evidence for NAHR-driven recurrent CNV events occurring in this location
Cited by: 16
Author(s): Agnieszka Żmieńko, Anna Samelak-Czajka, Piotr Kozlowski, M Szymańska, Marek Figlerowicz
Software Mentions: 1
Published: almost 8 years ago

10.7717/peerj.3319

Divergent evolutionary histories of DNA markers in a Hawaiian population of the coral <i>Montipora capitata</i>
Cited by: 3
Author(s): Hollie M. Putnam, Diane K. Adams, Ehud Zelzion, Nicole Wagner, Huan Qiu, Tali Mass, Paul G. Falkowski, Ruth D. Gates, Debashish Bhattacharya
Software Mentions: 1
Published: over 7 years ago

10.7717/peerj.9502

Genotypic characterization and genome comparison reveal insights into potential vaccine coverage and genealogy of <i>Neisseria meningitidis</i> in military camps in Vietnam
Cited by: 2
Author(s): Trang Thu Le, Thach Xuan Tran, Long Phi Trieu, Christopher M. Austin, Huong Minh Nguyen, Đồng Văn Quyền
Software Mentions: 1
Published: about 4 years ago

10.1186/1471-2105-13-S19-S3

Gene family assignment-free comparative genomics
Cited by: 20
Author(s): Daniel Doerr, Annelyse Thévenin, Jens Stoye
Software Mentions: 1
Published: almost 12 years ago