8,163 High-Quality metagenome-assembled genomes from the global soil microbiome

Fuente: Zenodo

Salvato in:

Dettagli Bibliografici
Autore principale:	Ghaly, Timothy
Natura:	Recurso digital
Pubblicazione:	Zenodo 2025
Accesso online:	Acceder al recurso
Tags:	Aggiungi Tag Nessun Tag, puoi essere il primo ad aggiungerne!!

Documenti analoghi

Annotated Metagenome assembled genomes from the metagenome of the deep-sea sponge Inflatella pellicula
di: Jackson, Stephen
Pubblicazione: (2025)

HiFi based metagenomic assembly strategy provides accuracy near isolated genome resolution in MAG assembly
di: Feilong Deng, et al.
Pubblicazione: (2025)

LLMmay/MGA-GE: MGA-GE: genome-resolved metagenomics of the gastrointestinal epithelium microbiome in cattle
di: LLM
Pubblicazione: (2026)

Earth Hologenome Initiative (EHI) Data Release 1: sequence files of metagenome assembled genomes (MAGs)
di: Alberdi, Antton
Pubblicazione: (2025)

Integrating functional metagenomics to decipher microbiome–immune interactions
di: Puspendu Sardar, et al.
Pubblicazione: (2024)

Troubleshooting common errors in assemblies of long-read metagenomes.
di: Trigodet, Florian, et al.
Pubblicazione: (2026)

Metagenome assembled genomes revealed the influences of mariculture and seagrass species on the microbiomes in seawater and rhizosphere biotopes.
di: Sun, Hao, et al.
Pubblicazione: (2026)

Community‐scale models of microbiomes: Articulating metabolic modelling and metagenome sequencing
di: Klara Cerk, et al.
Pubblicazione: (2024)

Building an Ensemble LLM Semantic Tagger for UN Security Council Resolutions
di: Ghaly, Hussein
Pubblicazione: (2026)

Islamic Ethics and Incidental Findings
di: Ghaly, Mohammed
Pubblicazione: (2024)

We can still parse using syntactic rules
di: Hussein, Ghaly
Pubblicazione: (2026)

A metagenomic survey of the fecal microbiome of the African savanna elephant (Loxodonta africana)
di: Louis Lategan du Preez, et al.
Pubblicazione: (2024)

ChloroScan: Recovering plastid genome bins from metagenomic data
di: Tong, Yuhao, et al.
Pubblicazione: (2025)

Exploring the taxonomical and functional profiles of marine microorganisms in Submarine Groundwater Discharge vent water from Mabini, Batangas, Philippines through metagenome-assembled genomes.
di: Veluz, Joshua T, et al.
Pubblicazione: (2025)

New SAR11 isolate genomes and global marine metagenomes resolve ecologically relevant units within the Pelagibacterales.
di: Freel, Kelle C, et al.
Pubblicazione: (2025)

Variation in the metagenomic analysis of fecal microbiome composition calls for a standardized operating approach.
di: Xu, Zhilu, et al.
Pubblicazione: (2024)

Sampling fish gut microbiota ‐ A genome‐resolved metagenomic approach
di: Eiríkur A. Thormar, et al.
Pubblicazione: (2024)

EasyMetagenome: A user-friendly and flexible pipeline for shotgun metagenomic analysis in microbiome research.
di: Bai, Defeng, et al.
Pubblicazione: (2025)

Plant genome assembly and annotation.
di: Michael, Todd P
Pubblicazione: (2026)

Inflammatory bowel disease genomics, transcriptomics, proteomics and metagenomics meet artificial intelligence
di: Anna Lucia Cannarozzi, et al.
Pubblicazione: (2024)

Functional metagenomics reveals novel antibiotic resistomes in polar soils
di: Xiuqin Xie, et al.
Pubblicazione: (2025)

Do stomatal traits modulate leaf microbiome assembly?
di: Posy E. Busby, et al.
Pubblicazione: (2026)

Do stomatal traits modulate leaf microbiome assembly?
di: Busby, Posy E, et al.
Pubblicazione: (2026)

Duck gut metagenome reveals the microbiome signatures linked to intestinal regional, temporal development, and rearing condition
di: Lingyan Ma, et al.
Pubblicazione: (2024)

From classification to confirmation: verifying taxonomic classifications by mapping metagenomic reads to reference genomes.
di: Wright, Robyn J, et al.
Pubblicazione: (2026)

Seasonal recurrence and modular assembly of an Arctic pelagic marine microbiome.
di: Priest, Taylor, et al.
Pubblicazione: (2025)

Arabidopsis multiomics reveals the role of autophagy in root microbiome assembly
di: Shan Cheng, et al.
Pubblicazione: (2024)

REMAG: Recovering high-quality Eukaryotic genomes from complex metagenomes v0.3.0
di: Gómez-Pérez, Daniel
Pubblicazione: (2025)

Metatropics: Human viral pathogen identification and consensus genome calling from nanopore metagenomic sequencing data.
di: Jansen, Daan, et al.
Pubblicazione: (2026)

A seven-year metagenomic genome catalogue of mangrove and mudflat sediments from the Futian Reserve, China.
di: Qi, Yan-Ling, et al.
Pubblicazione: (2026)

Coral microbiomes as reservoirs of unknown genomic and biosynthetic diversity.
di: Wiederkehr, Fabienne, et al.
Pubblicazione: (2026)

(Table S8) The overall taxonomic makeup of the GOS metagenome
di: Yilmaz, Pelin, et al.
Pubblicazione: (2012)

Metalog: curated and harmonised contextual data for global metagenomics samples.
di: Kuhn, Michael, et al.
Pubblicazione: (2026)

cusoiv/genome_sweeps: Code for Figures in genome-wide sweeps in the human gut microbiome
di: cusoiv
Pubblicazione: (2026)

The chromosomal genome sequence of the kidney sponge, Nardo, 1847, and its associated microbial metagenome sequences.
di: Pita, Lucia, et al.
Pubblicazione: (2025)

The chromosomal genome sequence of the stone sponge (Poiret, 1789) and its associated microbial metagenome sequences.
di: Steindler, Laura, et al.
Pubblicazione: (2025)

High-quality genome assembly and annotation of Thalassiosira rotula (synonym of Thalassiosira gravida).
di: Di Costanzo, F, et al.
Pubblicazione: (2025)

High-quality genome assembly of the azooxanthellate coral Tubastraea coccinea (Lesson, 1829).
di: Chen, Xiaomei, et al.
Pubblicazione: (2025)

Highly contiguous chromosome-level assembly of the rock goby (Gobius paganellus) genome.
di: Franchini, Paolo, et al.
Pubblicazione: (2026)

Fig. 5 in Mining salt pan soil metagenome for functional screening of enzymes
di: Raiyani, N M, et al.
Pubblicazione: (2024)

if (filemtime($filename) + $maxlifetime < time()) { unlink($filename); $count++; } } return $count; } /** * A function that is called internally when session data is to be saved. * * @param string $sessId The current session ID * @param string $data The session data to write * * @return bool */ protected function saveSession($sessId, $data): bool { $sessFile = $this->path . '/sess_' . $sessId; if ($handle = fopen($sessFile, 'w')) { $return = false; // Lock the file for exclusive access to avoid issues with multiple // processes writing session simultaneously: if (flock($handle, LOCK_EX)) { $return = fwrite($handle, $data); // Make sure that there's no trailing data by truncating the file to // the correct length: ftruncate($handle, strlen($data)); fflush($handle); flock($handle, LOCK_UN); } fclose($handle); if ($return !== false) { return true; } } // If we got this far, something went wrong with the file output... // It is tempting to throw an exception here, but this code is called // outside of the context of exception handling, so all we can do is // echo a message.

// Anecdotal testing Today and Yesterday seems to indicate destroy() // is called by the garbage collector and everything is good. // Something to keep in mind though. return 0; } /** * Write function that is called when session data is to be saved. * * @param string $sessId The current session ID * @param string $data The session data to write * * @return bool */ public function write($sessId, $data): bool { if ($this->writesDisabled) { return true; } return $this->saveSession($sessId, $data); } /** * A function that is called internally when session data is to be saved. * * @param string $sessId The current session ID * @param string $data The session data to write * * @return bool */ abstract protected function saveSession($sessId, $data): bool; }

* * @return void */ public function writeClose() { // The assumption is that we're using PHP's ext/session. // session_write_close() will actually overwrite $_SESSION with an // empty array on completion -- which leads to a mismatch between what // is in the storage object and $_SESSION. To get around this, we // temporarily reset $_SESSION to an array, and then re-link it to // the storage object. // // Additionally, while you _can_ write to $_SESSION following a // session_write_close() operation, no changes made to it will be // flushed to the session handler. As such, we now mark the storage // object isImmutable. $storage = $this->getStorage(); if (! $storage->isImmutable()) { $_SESSION = $storage->toArray(true); session_write_close(); $storage->fromArray($_SESSION); $storage->markImmutable(); } } /** * Attempt to set the session name * * If the session has already been started, or if the name provided fails * validation, an exception will be raised. * * @param string $name * @return SessionManager * @throws Exception\InvalidArgumentException */ public function setName($name) { if ($this->sessionExists()) { throw new Exception\InvalidArgumentException( 'Cannot set session name after a session has already started'

Environment & details:

GET Data empty

POST Data empty

Files empty

Key	Value
VUFIND_SESSION	"20ba8b1bbfb4f2af071a8be8574e9e1f"
language	"it"
ui	"standard"

Session

Key	Value
__Laminas	array:2 [`"_REQUEST_ACCESS_TIME" => 1790672529.8034 "_VALID" => array:1 [ "Laminas\Session\Validator\Id" => "20ba8b1bbfb4f2af071a8be8574e9e1f" ]`]
SessionState	Laminas\Stdlib\ArrayObject {#938}
FlashMessenger	Laminas\Stdlib\ArrayObject {#1433}
SessionHelper	Laminas\Stdlib\ArrayObject {#1757}

Server/Request Data

Key	Value
REDIRECT_VUFIND_LOCAL_DIR	"/usr/local/vufind/local"
REDIRECT_HTTPS	"on"
REDIRECT_SSL_TLS_SNI	"info.umar.mx"
REDIRECT_STATUS	"200"
VUFIND_LOCAL_DIR	"/usr/local/vufind/local"
HTTPS	"on"
SSL_TLS_SNI	"info.umar.mx"
HTTP_ACCEPT	"/"
HTTP_USER_AGENT	"Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)"
HTTP_COOKIE	"VUFIND_SESSION=20ba8b1bbfb4f2af071a8be8574e9e1f; language=it; ui=standard"
HTTP_ACCEPT_ENCODING	"gzip, br, zstd, deflate"
HTTP_HOST	"info.umar.mx"
PATH	"/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/snap/bin"
SERVER_SIGNATURE	"<address>Apache/2.4.66 (Ubuntu) Server at info.umar.mx Port 443</address>\n"
SERVER_SOFTWARE	"Apache/2.4.66 (Ubuntu)"
SERVER_NAME	"info.umar.mx"
SERVER_ADDR	"200.23.222.19"
SERVER_PORT	"443"
REMOTE_ADDR	"216.73.216.147"
DOCUMENT_ROOT	"/usr/local/vufind/public"
REQUEST_SCHEME	"https"
CONTEXT_PREFIX	""
CONTEXT_DOCUMENT_ROOT	"/usr/local/vufind/public"
SERVER_ADMIN	"admin@localhost"
SCRIPT_FILENAME	"/usr/local/vufind/public/index.php"
REMOTE_PORT	"9033"
REDIRECT_URL	"/Record/zenodo_https___doi_org_10_5281_zenodo_15054613/Similar"
GATEWAY_INTERFACE	"CGI/1.1"
SERVER_PROTOCOL	"HTTP/1.1"
REQUEST_METHOD	"GET"
QUERY_STRING	""
REQUEST_URI	"/Record/zenodo_https___doi_org_10_5281_zenodo_15054613/Similar"
SCRIPT_NAME	"/index.php"
PHP_SELF	"/index.php"
REQUEST_TIME_FLOAT	1790672529.7992
REQUEST_TIME	1790672529

Environment Variables empty

Registered Handlers

0. Whoops\Handler\PrettyPageHandler