Transcriptome‐Guided Characterization of Molecular Resources in Mussels DOI
Snigdha Baliarsingh,

Mariadoss Selvanayagam,

Hrudayanath Thatoi

et al.

Published: Oct. 25, 2024

Mussels act as ecosystem engineers by modifying the aquatic habitat, making it more suitable for sustenance of their species and other organisms. Moreover, mussel are targeted functional genomics resources mainly attributed to robust immune system. Further, from conservation standpoint, few sensitively placed. Next-generation sequencing, particularly whole-genome transcriptome-guided assemblies, enables precise diagnosis molecular aspects mussels. This aids host–pathogen dynamics environmental biomonitoring informs strategies. The transcriptome approach is appealing provides measurement transcript levels gene expression information. In last decade, continued evolution whole-transcriptome experiment-specific studies have characterized groups transcripts involved in growth, immunity, reproduction. enhanced information on response adaptation mussels external conditions has been obtained. review enlists growing paradigm related obtained through high-throughput approach. study presented here would be crucial combination data with traditional physiological population needed shellfish aquaculture, management, improvement genetic strains.

Language: Английский

A genome-based phylogeny for Mollusca is concordant with fossils and morphology DOI Open Access
Zeyuan Chen, J. Antonio Baeza, Chong Chen

et al.

Science, Journal Year: 2025, Volume and Issue: 387(6737), P. 1001 - 1007

Published: Feb. 27, 2025

Extreme morphological disparity within Mollusca has long confounded efforts to reconstruct a stable backbone phylogeny for the phylum. Familiar molluscan groups—gastropods, bivalves, and cephalopods—each represent diverse radiation with myriad morphological, ecological, behavioral adaptations. The phylum further encompasses many more unfamiliar experiments in animal body-plan evolution. In this work, we reconstructed living on basis of metazoan BUSCO (Benchmarking Universal Single-Copy Orthologs) genes extracted from 77 (13 new) genomes, including multiple members all eight classes two high-quality genome assemblies monoplacophorans. Our analyses confirm proposed morphology show widespread genomic variation. flexibility likely explains both historic challenges their genomes evolutionary success.

Language: Английский

Citations

3
PacBio Hi-Fi genome assembly of the Iberian dolphin freshwater mussel Unio delphinus Spengler, 1793 DOI Creative Commons
André Gomes‐dos‐Santos, Manuel Lopes‐Lima, André M. Machado

et al.

Scientific Data, Journal Year: 2023, Volume and Issue: 10(1)

Published: June 1, 2023

Abstract Mussels of order Unionida are a group strictly freshwater bivalves with nearly 1,000 described species widely dispersed across world ecosystems. They highly threatened showing the highest record extinction events within faunal taxa. Conservation is particularly concerning in occurring Mediterranean biodiversity hotspot that exposed to multiple anthropogenic threats, possibly acting synergy. That case dolphin mussel Unio delphinus Spengler, 1793, endemic western Iberian Peninsula recently strong population declines. To date, only four genome assemblies available for and one European species. We present first assembly . used PacBio HiFi generate contiguous assembly. The 2.5 Gb long, possessing 1254 contigs contig N50 length 10 Mbp. This most date an essential resource investigating species’ biology evolutionary history ultimately will help support conservation strategies.

Language: Английский

Citations

10
Exploring the evolution of sex determination related genes through a cross-species genomics analysis DOI Creative Commons
Filippo Nicolini, Sergey V. Nuzhdin, Fabrizio Ghiselli

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 31, 2025

Abstract The molecular basis of sex determination (SD), while being extensively studied in model organisms, remains poorly understood many animal groups. Bivalves, a diverse class molluscs with variety reproductive modes, represent an ideal yet challenging clade for investigating SD and the evolution sexual systems. However, absence comprehensive framework has limited progress this field, particularly regarding study sex-determination related genes (SRGs). In study, we performed genome-wide sequence evolutionary analysis Dmrt, Sox, Fox gene families more than 40 bivalve species. For first time, provide extensive phylogenetic-aware dataset these SRGs, find support to hypothesis that Dmrt-1L Sox-H may act as primary sex-determining genes, by showing their high levels diversity within genomic context. To validate our findings, same two well-characterized systems, mammals Drosophila . former, found male Sry exhibits pattern amino acid similar bivalves, consistent its role master regulator. contrast, no such was observed among fruit fly cascade, which is controlled chromosomic mechanism. Overall, findings highlight similarities some mammal possibly driven comparable architecture cascades. This work underscores once again importance employing comparative approach when understudied non-model

Language: Английский

Citations

0
Chromosome-level genome assembly of the freshwater bivalve Anodonta woodiana DOI Creative Commons
Xiubao Chen, Tao Jiang,

Junren Xue

et al.

Scientific Data, Journal Year: 2025, Volume and Issue: 12(1)

Published: May 2, 2025

Language: Английский

Citations

0
Chromosome-level genome assembly of the freshwater mussel Sinosolenaia oleivora (Heude, 1877) DOI Creative Commons

Xueyan Ma,

Wu Jin,

Wanwen Chen

et al.

Scientific Data, Journal Year: 2024, Volume and Issue: 11(1)

Published: June 8, 2024

Abstract Sinosolenaia oleivora (Bivalve, Unionida, Unionidae), is a near-endangered edible mussel. In 2022, it was selected by the Ministry of Agriculture and Rural Affairs as top-ten aquatic germplasm resource, with potential for industrial development. Using Illumina, PacBio, Hi-C technology, high-quality chromosome-level genome S. assembled. The assembled spanned 2052.29 Mb contig N50 size 20.36 scaffold 103.57 Mb. 302 contigs, accounting 98.41% total genome, were anchored into 19 chromosomes using scaffolding. A 1171.78 repeat sequences annotated 22,971 protein-coding genes predicted. Compared nearest ancestor, 603 expanded 1767 contracted gene families found. This study provides important genomic resources conservation, evolutionary research, genetic improvements many economic traits like growth performance.

Language: Английский

Citations

3
The transcriptome assembly of the European freshwater mussel Unio elongatulus C. Pfeiffer, 1825 DOI Creative Commons
André Gomes‐dos‐Santos, Elza Fonseca, Nicoletta Riccardi

et al.

Scientific Data, Journal Year: 2024, Volume and Issue: 11(1)

Published: April 12, 2024

Freshwater mussels of the order Unionida are a global conservation concern. Species this group strictly freshwater, sessile, slow-growing animals and, extremely sensitive to environmental changes. Human-mediated changes in freshwater habitats imposing enormous pressure on survival mussels. Although few flagship species protected Europe, other highly imperilled receive much less attention. Moreover, knowledge about biology, ecology, and evolution proper assessments many European still sparse. This gap is further aggravated by lack genomic resources available, which key tools for conservation. Here we present transcriptome assembly Unio elongatulus C. Pfeiffer, 1825, one least studied Using individual sequencing outputs from eight physiologically representative mussel tissues, provide an annotated panel tissue-specific Relative Gene Expression profiles. These pivotal studying species' biological ecological features, as well helping understand its vulnerability current future threats.

Language: Английский

Citations

2
Mitonuclear compatibility is maintained despite relaxed selection on male mitochondrial DNA in bivalves with doubly uniparental inheritance DOI
Chase H. Smith, Raquel Mejia-Trujillo, Justin C. Havird

et al.

Evolution, Journal Year: 2024, Volume and Issue: 78(11), P. 1790 - 1803

Published: July 11, 2024

Abstract Mitonuclear coevolution is common in eukaryotes, but bivalve lineages that have doubly uniparental inheritance (DUI) of mitochondria may be an interesting example. In this system, females transmit mtDNA (F mtDNA) to all offspring, while males a different (M solely their sons. Molecular evolution and functional data suggest oxidative phosphorylation (OXPHOS) genes encoded M evolve under relaxed selection due function being limited sperm only (vs. other tissues for F mtDNA). This has led the hypothesis mitonuclear less important mtDNA. Here, we use comparative phylogenetics, transcriptomics, proteomics understand interactions DUI bivalves. We found nuclear OXPHOS proteins coevolve maintain compatibility similarly with both proteins. Mitochondrial recombination did not influence nuclear-encoded were upregulated offset dysfunction. Our results support maintains despite on Strict transmission, lower effective population size, higher mutation rates explain study highlights broad features eukaryotes.

Language: Английский

Citations

1
Single molecule real-time sequencing data sets of Hypericum perforatum L. plantlets and cell suspension cultures DOI Creative Commons
Rajendran K. Selvakesavan, Maria Nuc, Vladislav Kolarčik

et al.

Scientific Data, Journal Year: 2024, Volume and Issue: 11(1)

Published: Jan. 6, 2024

Hypericum is a large genus that includes more than 500 species of pharmacological, ecological and conservation value. Although latest advances in sequencing technologies were extremely exploited for generating assembling genomes many living organisms, annotated whole genome sequence data not publicly available any the so far. Bioavailability secondary metabolites varies different tissues derived from cultures will be valuable tool comparative studies. Here, we report single molecule real-time (SMRT) sets perforatum L. plantlets cell suspension first time. Sequencing yielded 33,000 high-quality transcripts 20 Gb raw data, while 55,000 obtained 35 plantlets. This dataset transcriptomic analysis help to understand unknown biosynthetic pathways high medicinal value genus.

Language: Английский

Citations

0
Investigação do potencial genômico funcional da cianobactéria >i<Capilliphycus salinus>/i< ALCB114379 e sua diversidade microbiana DOI Creative Commons
Gabriel Schimmelpfeng Passos

Published: Feb. 1, 2024

Citations

0
Transcriptome‐Guided Characterization of Molecular Resources in Mussels DOI
Snigdha Baliarsingh,

Mariadoss Selvanayagam,

Hrudayanath Thatoi

et al.

Published: Oct. 25, 2024

Mussels act as ecosystem engineers by modifying the aquatic habitat, making it more suitable for sustenance of their species and other organisms. Moreover, mussel are targeted functional genomics resources mainly attributed to robust immune system. Further, from conservation standpoint, few sensitively placed. Next-generation sequencing, particularly whole-genome transcriptome-guided assemblies, enables precise diagnosis molecular aspects mussels. This aids host–pathogen dynamics environmental biomonitoring informs strategies. The transcriptome approach is appealing provides measurement transcript levels gene expression information. In last decade, continued evolution whole-transcriptome experiment-specific studies have characterized groups transcripts involved in growth, immunity, reproduction. enhanced information on response adaptation mussels external conditions has been obtained. review enlists growing paradigm related obtained through high-throughput approach. study presented here would be crucial combination data with traditional physiological population needed shellfish aquaculture, management, improvement genetic strains.

Language: Английский

Citations

0