Results 41 to 50 of about 174,716 (299)

Plant pan-genomes are the new reference [PDF]

Nature Plants, 2020
Recent years have seen a surge in plant genome sequencing projects and the comparison of multiple related individuals. The high degree of genomic variation observed led to the realization that single reference genomes do not represent the diversity within a species, and led to the expansion of the pan-genome concept.
Philipp E. Bayer, Agnieszka A. Golicz, Armin Scheben, Jacqueline Batley, David Edwards   +4 more
openaire   +3 more sources

Efficient oligonucleotide probe selection for pan-genomic tiling arrays

BMC Bioinformatics, 2009
Background Array comparative genomic hybridization is a fast and cost-effective method for detecting, genotyping, and comparing the genomic sequence of unknown bacterial isolates.
Zhang Wei, Deng Xiangyu, Phillippy Adam M, Salzberg Steven L   +3 more
doaj   +1 more source

Getting insight into the pan-genome structure with PangTree

BMC Genomics, 2020
Background The term pan-genome was proposed to denominate collections of genomic sequences jointly analyzed or used as a reference. The constant growth of genomic data intensifies development of data structures and algorithms to investigate pan-genomes ...
Paulina Dziadkiewicz, Norbert Dojer
doaj   +1 more source

Comparative Genomics Analysis of a New Exiguobacterium Strain from Salar de Huasco Reveals a Repertoire of Stress-Related Genes and Arsenic Resistance [PDF]

, 2017
Indexación: Web of Science; Scopus.The Atacama Desert hosts diverse ecosystems including salt flats and shallow Andean lakes. Several heavy metals are found in the Atacama Desert, and microorganisms growing in this environment show varying levels of ...
Aguayo, D., Aguilar, P., Castro-Nallar, E., Castro-Severyn, J., Dorador, C., Fortt, J., Molina, F., Pardo-Esté, C., Quatrini, R., Remonsellez, F., Saavedra, C.P., Salinas, C., Valenzuela, S.L.   +12 more
core   +3 more sources

Probing the pan-genome of Listeria monocytogenes: new insights into intraspecific niche expansion and genomic diversification [PDF]

, 2010
Bacterial pathogens often show significant intraspecific variations in ecological fitness, host preference and pathogenic potential to cause infectious disease. The species of Listeria monocytogenes, a facultative intracellular pathogen and the causative
Adam M Phillippy, Steven L Salzberg, Wei Zhang, Xiangyu Deng, Zengxin Li   +4 more
core   +2 more sources

Subtype‐specific enhancer RNAs define transcriptional regulators and prognosis in breast cancers

Molecular Oncology, EarlyView.
This study employed machine learning methodologies to perform the subtype‐specific classification of RNA‐seq data sets, which are mapped on enhancers from TCGA‐derived breast cancer patients. Their integration with gene expression (referred to as ProxCReAM eRNAs) and chromatin accessibility profiles has the potential to identify lineage‐specific and ...
Aamena Y. Patel, Peyman Zarrineh, Nathnael T. Tuffa, Jigar H. Sheth, Sumitra Mohan, Mudassar Iqbal, Sankari Nagarajan   +6 more
wiley   +1 more source

Understanding the Evolutionary Relationships and Major Traits of \u3cem\u3eBacillus\u3c/em\u3e through Comparative Genomics [PDF]

, 2010
Background: The presence of Bacillus in very diverse environments reflects the versatile metabolic capabilities of a widely distributed genus. Traditional phylogenetic analysis based on limited gene sampling is not adequate for resolving the genus ...
Alcaraz, Luis D., Eguiarte, Luis E., Herrera-Estrella, Luis, Moreno-Hagelsieb, Gabriel, Olmedo, Gabriela, Souza, Valeria   +5 more
core   +1 more source

Neutral genomic microevolution of a recently emerged pathogen, salmonella enterica serovar agona [PDF]

, 2013
Salmonella enterica serovar Agona has caused multiple food-borne outbreaks of gastroenteritis since it was first isolated in 1952. We analyzed the genomes of 73 isolates from global sources, comparing five distinct outbreaks with sporadic infections as
Achtman, Mark, Brisse, Sylvain, Brown, Derek, Cormican, Martin, Fanning, Seamus, Guttman, David S., Litrup, Eva, McCann, Angela, Murphy, Ronan, Zhou, Zhemin   +9 more
core   +3 more sources

Genetic attenuation of ALDH1A1 increases metastatic potential and aggressiveness in colorectal cancer

Molecular Oncology, EarlyView.
Aldehyde dehydrogenase 1A1 (ALDH1A1) is a cancer stem cell marker in several malignancies. We established a novel epithelial cell line from rectal adenocarcinoma with unique overexpression of this enzyme. Genetic attenuation of ALDH1A1 led to increased invasive capacity and metastatic potential, the inhibition of proliferation activity, and ultimately ...
Martina Poturnajova, Zuzana Kozovska, Ondrej Pos, Kristina Pavlov, Sachin Gulati, Peter Makovicky, Kristina Jakic, Monika Burikova, Eva Sedlackova, Barbora Svitkova, Silvia Tyciakova, Vojtech Bystry, Nicolas Blavet, Boris Tichy, Matej Hrnciar, Jaroslav Budis, Miroslav Tomas, Peter Dubovan, Georgina Kolnikova, Veronika Repaska, Nikoleta Mojzesova, Eva Zomborska, Daniel Pindak, Michal Mego, Tomas Szemes, Miroslava Matuskova   +25 more
wiley   +1 more source

Evolutionary relationships among bifidobacteria and their hosts and environments. [PDF]

, 2020
BACKGROUND:The assembly of animal microbiomes is influenced by multiple environmental factors and host genetics, although the relative importance of these factors remains unclear.
Martiny, Jennifer BH, Rodriguez, Cynthia I   +1 more
core