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Main Authors:	Song, Huiyin, He, Tian, Guan, Rongli, Li, Tiantian, Fang, Zhiwei, Zhu, Zhaolu, Gao, Lifen, Chen, Lihong, Xiao, Zilan, Hu, Yuxin, Yan, Qiufeng, Liu, Feng, Peng, Hai, Liu, Guoxiang
Format:	Artículo científico
Language:	en
Published:	BMC plant biology 2025
Subjects:	Phylogeny Evolution, Molecular Genome, Plastid Chlorophyceae Biological Evolution
Online Access:	https://pubmed.ncbi.nlm.nih.gov/41053539/
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OGU: A Toolbox for Better Utilising Organelle Genomic Data.
by: Wu, Ping, et al.
Published: (2025)

Taken to extremes: Loss of plastid rpl32 in Streptophyta and Cuscuta's unconventional solution for its replacement.
by: Fischer, Karsten, et al.
Published: (2025)

Plastid translocon recycling in dinoflagellates demonstrates the portability of complex plastids between hosts.
by: Lewis, William H, et al.
Published: (2024)

The chromosome-level genome provides insights into the adaptive evolution of the visual system in Oratosquilla oratoria.
by: Zhang, Daizhen, et al.
Published: (2025)

New lineages provide insights into the convergent evolution of extreme salt adaptation within symbiotic Archaea.
by: Hamm, Joshua N, et al.
Published: (2026)

Comparative mitogenomic analyses of the infraclass Pteriomorphia (Mollusca: Bivalvia) provides novel insights into gene rearrangement and phylogeny.
by: Zhang, Yu, et al.
Published: (2025)

Multiple plastid losses within photosynthetic stramenopiles revealed by comprehensive phylogenomics.
by: Terpis, Kristina X, et al.
Published: (2025)

Adaptive evolution and phylogeny of cerithioid gastropods with six new mitogenomes.
by: Shin, Cho Rong, et al.
Published: (2025)

Comparative Genomics of Chloropicon primus and Chloropicon roscoffensis Provide Insights into the Evolutionary Dynamics and Ecological Success of These Tiny Green Algae in Marine Environments.
by: Turmel, Monique, et al.
Published: (2025)

Beyond the sandy bottom: evolutionary and taxonomic insights into lizardfishes (Teleostei: Aulopiformes).
by: Wang, Shih-Yu, et al.
Published: (2026)

Ecological interactions and genomic innovation fueled the evolution of ray-finned fish endothermy.
by: Melendez-Vazquez, Fernando, et al.
Published: (2025)

Phylogenomics reveals the slow-burning fuse of diatom evolution.
by: Alverson, Andrew J, et al.
Published: (2025)

A genome-based phylogeny for Mollusca is concordant with fossils and morphology.
by: Chen, Zeyuan, et al.
Published: (2025)

Chromosome-level genome provides novel insights into the starch metabolism regulation and evolutionary history of Tetraselmis helgolandica.
by: Zhou, Zuodong, et al.
Published: (2026)

Phylogeny of waterfowl (Anseriformes) constructed using genome sequences provides insights into topological incongruences.
by: Wang, Gang, et al.
Published: (2026)

Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage.
by: Feng, Bo, et al.
Published: (2025)

Diversity, ecology, cell biology and evolution of the Asgard archaea.
by: Panagiotou, Kassiani, et al.
Published: (2026)

Three reference genomes for freshwater diatom ecology and evolution.
by: Roberts, Wade R, et al.
Published: (2025)

Reconstructing the last common ancestor of all eukaryotes.
by: Richards, Thomas A, et al.
Published: (2024)

Genomes of nitrogen-fixing eukaryotes reveal an alternate path for organellogenesis.
by: Frail, Sarah, et al.
Published: (2025)

The big, the small and the weird: A phylogenomic analysis of extant Priapulida.
by: Raeker, Jan, et al.
Published: (2025)

Phylogenomic Analyses Reveal that Panguiarchaeum Is a Clade of Genome-Reduced Asgard Archaea Within the Njordarchaeia.
by: Huang, Wen-Cong, et al.
Published: (2025)

MoleRate: comparing molecular relative evolutionary rates to detect convergent evolution.
by: Selberg, Avery G, et al.
Published: (2026)

Phylogenomic analyses of Pliocardiinae (Bivalvia: Vesicomyidae) update genus-level taxonomy and shed light on trait evolution.
by: Gao, Kexin, et al.
Published: (2025)

Photosymbiosis shaped animal genome architecture and gene evolution as revealed in giant clams.
by: Li, Ruiqi, et al.
Published: (2025)

Phylogenomics establishes an Early Miocene reconstruction of reef vertebrate diversity.
by: Brownstein, Chase D, et al.
Published: (2025)

An episodic burst of massive genomic rearrangements and the origin of non-marine annelids.
by: Vargas-Chávez, Carlos, et al.
Published: (2025)

Disentangling the evolutionary history of terrestrial planarians through phylogenomics.
by: Benítez-Álvarez, Lisandra, et al.
Published: (2025)

Complete Mitochondrial Genomes of Ancyromonads Provide Clues for the Gene Content and Genome Structures of Ancestral Mitochondria.
by: Harada, Ryo, et al.
Published: (2025)

The Chromosome-level Genome of the Ctenophore Mnemiopsis leidyi A. Agassiz, 1865 Reveals a Unique Immune Gene Repertoire.
by: Koutsouveli, Vasiliki, et al.
Published: (2025)

DPANN archaea.
by: Huang, Wen-Cong, et al.
Published: (2025)

Phoronid genome supports a monophyletic Lophophorata.
by: Lewin, Thomas D, et al.
Published: (2025)

The genomic basis of independent marine transitions in turtles: convergent episodic adaptation and demographic shifts.
by: Ramos, Elisa, et al.
Published: (2026)

The complete chloroplast genome of Secale strictum ssp. strictum provides insights into Triticeae evolution and breeding.
by: Skuza, Lidia, et al.
Published: (2025)

Insights into cephalochordate genome and gene evolution from the early-diverging amphioxus .
by: Ren, Yifan, et al.
Published: (2026)

Evolutionary genomics of the emergence of brown algae as key components of coastal ecosystems.
by: Denoeud, France, et al.
Published: (2024)

Whole-genome duplications revealed by macronuclear genomes of five rare species of the model ciliates Paramecium.
by: Ni, Jiahao, et al.
Published: (2025)

Evolutionary dynamics of mitochondrial genomes and intracellular transfers among diploid and allopolyploid cotton species.
by: Kong, Jiali, et al.
Published: (2025)

The evolutionary history of the field vole species complex revealed by modern and ancient genomes.
by: Baca, Mateusz, et al.
Published: (2026)

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'

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