NextSpain: Spanish site for Nextstrain: Consortium for Genomic Epidemiology of Pathogens.

NextSpain: Spanish site for Nextstrain: Consortium for Genomic Epidemiology of Pathogens.

Built with fisabio-ngs/ncov19-Spain. Maintained by FISABIO Sequencing and Bioinformatics Service.

Showing 191 of 191 genomes sampled between Feb 2020 and Mar 2020.

Phylogeny

SpainCountry2020-Jan-012020-Jan-152020-Jan-292020-Feb-122020-Feb-262020-Mar-112020-Mar-25Date

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https://nextstrain.org/groups/nextspain/ncov19-Spain?c=country&fbclid=IwAR1hm3X49vthvsKEe3ysnmP3fz80u6uHsMM0IBGinI5Afvnkt6AbNZJU_pw

NextSpain is a publicly funded initiative to facilitate the analysis and interpretation of results on the epidemiology and evolution of microbial pathogens in Spain to contribute to informed decisions during epidemics and outbreaks. NextSpain hosts the results from molecular and genomic epidemiology analyses from different Spanish research group on several pathogens following the procedures established by NextStrain. This site was launched during the COVID-19 pandemics and it will progressively incorporate the results for other pathogens, regardless their deposit in GISAID or other publicly accessible databases.

• NextSpain COVID-19 shows the results obtained from the analysis of complete genome sequences of SARS-CoV-2 deposited in GISAID or other publicly accessible databases. The analyses are performed with the NextStrain engine to inform the scientific community and the general society about the genomic epidemiology of COVID-19 in Spain: SeqCOVID Genomic epidemiology of COVID-19 in Spain.

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NextSpain: Spanish site for Nextstrain: Consortium for Genomic Epidemiology of Pathogens. (last updated 2020-04-28)

Showing 191 of 191 genomes sampled between Feb 2020 and Mar 2020.

A full list of sequence authors is available via the TSV files below

This work is made possible by the open sharing of genetic data by research groups from all over the world. We gratefully acknowledge their contributions.

Data usage policy

The data presented here is intended to rapidly disseminate analysis of important pathogens. Unpublished data is included with permission of the data generators, and does not impact their right to publish. Please contact the respective authors (available via the TSV files below) if you intend to carry out further research using their data. Derived data, such as phylogenies, can be downloaded below - please contact the relevant authors where appropriate.

Please cite the authors who contributed genomic data (where relevant), as well as:

• Hadfield et al, Nextstrain: real-time tracking of pathogen evolution, Bioinformatics (2018)
• Sagulenko et al, TreeTime: Maximum-likelihood phylodynamic analysis, Virus Evolution (2017)

Download data:

Phylogenetic tree in Newick format with branch lengths in units of divergence.

Phylogenetic tree in Newick format with branch lengths measured in years.

Per-sample metadata for all samples in the dataset (n = 191).

Per-sample metadata for strains which are currently displayed (n = 191/191).

Metadata for all samples in the dataset (n = 191) grouped by their 89 authors.

Screenshot of the current nextstrain display in SVG format.

This web page is still under development

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COMPLEJO ASISTENCIAL UNIVERSITARIO DE BURGOS (3)

FUNDACION JIMENEZ DIAZ (2)

Fundacion Jimenez Diaz (3)

HOSPITAL DE CRUCES (1)

HOSPITAL GENERAL DE SEGOVIA (1)

HOSPITAL SANTA MARIA NAI (1)

HOSPITAL TXAGORRITXU (3)

HOSPITAL UNIVERSITARIO LA PAZ (1)

HOSPITAL UNIVERSITARIO VIRGEN DE LAS NIEVES (3)

Hospital General y Universitario de Guadalajara (2)

Hospital San Pedro (1)

Hospital Universitari Germans Trias i Pujol (1)

Hospital Universitari Vall d'Hebron (HUVH) (2)

Hospital Universitario 12 de Octubre (48)

Hospital Universitario La Paz (16)

Hospital Universitario Ramon y Cajal (3)

Hospital Universitario de Canarias (1)

Servicio de Microbiologia. Consorcio Hospital General Universitario de Valencia (69)

Servicio de Microbiologia. Hospital Clinico Universitario de Valencia (30)

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Barakaldo (1)

Barcelona (3)

Burgos (3)

Granada (3)

Guadalajara (2)

Madrid (73)

Orense (1)

Santa Cruz de Tenerife (2)

Segovia (1)

Valencia (99)

Vitoria-Gasteiz (3)

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Andalucia (3)

Canarias (1)

Castilla La Mancha (2)

Castilla y Leon (4)

Catalunya (3)

Comunitat Valenciana (99)

Euskadi (4)

Galicia (1)

La Rioja (1)

Madrid (73)

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Spain (191)

Data updated 2020-04-28