Developmental Transcriptome Analysis and Identification of Genes Involved in Larval Metamorphosis of the Razor Clam, Sinonovacula constricta

Niu, Donghong; Wang, Fei; Xie, Shumei; Sun, Fenyong; Wang, Ze; Peng, Maoxiao; Li, Jiale

doi:10.1007/s10126-016-9691-y

Cited by 34 publications

(13 citation statements)

References 46 publications

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“…In fact, there is evidence of the neuronal signaling for this transition as high levels of proteins involved in neurotransmitter release were detected on day 17. Changes in expression of neurotransmitter pathway proteins and transcripts have also been noted in other invertebrate larvae as they approach settlement (Niu et al, ; Shen et al, ).…”

Section: Discussionmentioning

confidence: 91%

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO₂

Timmins‐Schiffman

Guzmán

Thompson

et al. 2019

Ecology and Evolution

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Pacific geoducks (Panopea generosa) are clams found along the northeast Pacific coast where they are important components of coastal and estuarine ecosystems and a major aquaculture product. The Pacific coastline, however, is also experiencing rapidly changing ocean habitat, including significant reductions in pH. To better understand the physiological impact of ocean acidification on geoduck clams, we characterized for the first time the proteomic profile of this bivalve during larval development and compared it to that of larvae exposed to low pH conditions. Geoduck larvae were reared at pH 7.5 (ambient) or pH 7.1 in a commercial shellfish hatchery from day 6 to day 19 postfertilization and sampled at six time points for an in‐depth proteomics analysis using high‐resolution data‐dependent analysis. Larvae reared at low pH were smaller than those reared at ambient pH, especially in the prodissoconch II phase of development, and displayed a delay in their competency for settlement. Proteomic profiles revealed that metabolic, cell cycle, and protein turnover pathways differed between the two pH and suggested that differing phenotypic outcomes between pH 7.5 and 7.1 are likely due to environmental disruptions to the timing of physiological events. In summary, ocean acidification results in elevated energetic demand on geoduck larvae, resulting in delayed development and disruptions to normal molecular developmental pathways, such as carbohydrate metabolism, cell growth, and protein synthesis.

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Section: Discussionmentioning

confidence: 91%

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO₂

Timmins‐Schiffman

Guzmán

Thompson

et al. 2019

Ecology and Evolution

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“…Aiming to understand the S. constricta diseases and mortality caused by germplasm degradation and water pollution, Feng et al () sequenced 5,296 expressed sequenced tags with 43 putative immune genes. To identify genes associated with growth trait and metamorphosis, the transcriptome of S. constricta was sequenced (Niu et al, ; Niu, Wang, Sun, Liu, & Li, ). To reveal the mechanism of cadmium detoxification of S. constricta , an RNA‐sequencing (RNA‐seq) analysis was conducted (Wang et al, ).…”

Section: Introductionmentioning

confidence: 99%

Chromosome‐level genome assembly of the razor clam Sinonovacula constricta (Lamarck, 1818)

Ran

Yan

et al. 2019

Molecular Ecology Resources

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Bivalves, a highly diverse and the most evolutionarily successful class of invertebrates native to aquatic habitats, provide valuable molecular resources for understanding the evolutionary adaptation and aquatic ecology. Here, we reported a high‐quality chromosome‐level genome assembly of the razor clam Sinonovacula constricta using Pacific Bioscience single‐molecule real‐time sequencing, Illumina paired‐end sequencing, 10X Genomics linked‐reads and Hi‐C reads. The genome size was 1,220.85 Mb, containing scaffold N50 of 65.93 Mb and contig N50 of 976.94 Kb. A total of 899 complete (91.92%) and seven partial (0.72%) matches of the 978 metazoa Benchmarking Universal Single‐Copy Orthologs were determined in this genome assembly. And Hi‐C scaffolding of the genome resulted in 19 pseudochromosomes. A total of 28,594 protein‐coding genes were predicted in the S. constricta genome, of which 25,413 genes (88.88%) were functionally annotated. In addition, 39.79% of the assembled genome was composed of repetitive sequences, and 4,372 noncoding RNAs were identified. The enrichment analyses of the significantly expanded and contracted genes suggested an evolutionary adaptation of S. constricta to highly stressful living environments. In summary, the genomic resources generated in this work not only provide a valuable reference genome for investigating the molecular mechanisms of S. constricta biological functions and evolutionary adaptation, but also facilitate its genetic improvement and disease treatment. Meanwhile, the obtained genome greatly improves our understanding of the genetics of molluscs and their comparative evolution.

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“…Razor clams ( Sinonovacula constricta ), one of the four major cultivated shellfishes in China, are mainly distributed in the eastern coastal area, especially near Ningbo in Zhejiang province (Cao ; Lu and others ; Niu and others ). Each year, razor clams spawn between April and June, when its quality and flavor are at their peak.…”

Section: Introductionmentioning

confidence: 99%

Impact of High Hydrostatic Pressure on the Shelling Efficacy, Physicochemical Properties, and Microstructure of Fresh Razor Clam (Sinonovacula constricta)

Xuan

Cui

Lin

et al. 2018

Journal of Food Science

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High hydrostatic pressure (HHP) is now well known as a nonthermal processing technology and becoming increasingly acknowledged. However, it has not been widely applied to shell seafood due to its uncertain influence on its quality and shelling property. This study could provide valuable information regarding the shelling efficacy, physicochemical properties, and microstructure of razor clam treated by HHP. And it demonstrated that HHP showed a positive impact on quality of razor clam treated by HHP.

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Developmental Transcriptome Analysis and Identification of Genes Involved in Larval Metamorphosis of the Razor Clam, Sinonovacula constricta

Cited by 34 publications

References 46 publications

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO₂

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO₂

Chromosome‐level genome assembly of the razor clam Sinonovacula constricta (Lamarck, 1818)

Impact of High Hydrostatic Pressure on the Shelling Efficacy, Physicochemical Properties, and Microstructure of Fresh Razor Clam (Sinonovacula constricta)

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Developmental Transcriptome Analysis and Identification of Genes Involved in Larval Metamorphosis of the Razor Clam, Sinonovacula constricta

Cited by 34 publications

References 46 publications

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO2

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO2

Chromosome‐level genome assembly of the razor clam Sinonovacula constricta (Lamarck, 1818)

Impact of High Hydrostatic Pressure on the Shelling Efficacy, Physicochemical Properties, and Microstructure of Fresh Razor Clam (Sinonovacula constricta)

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Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO₂

Dynamic response in the larval geoduck (Panopea generosa) proteome to elevated pCO₂