An integrated proteomic and transcriptomic analysis of perivitelline fluid proteins in a freshwater gastropod laying aerial eggs

Mu, Huawei; Sun, Jin; Heras, Horacio; Chu, Ka Hou; Qiu, Jian‐Wen

doi:10.1016/j.jprot.2017.01.006

Cited by 29 publications

(40 citation statements)

References 62 publications

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“…Proteomic analysis was performed by integrating SDS‐PAGE and LC/MS/MS . In brief, each sample was centrifuged for 10 min at 12,000 g in a centrifuge that was set at 4°C; the supernatant was collected, purified using the methanol/chloroform method, and quantified using a RC‐DC kit (Bio‐Rad, Hercules, CA, USA).…”

Section: Methodsmentioning

confidence: 99%

“…Proteins without GO annotation were further searched against COFACTOR, which derives protein function based on structural comparisons and protein–protein networks, using the I‐TASSER server with a GO‐score threshold of 0.5 . In addition, a BLASTp search with E ‐value threshold of 10 −5 was conducted to compare the PVF composition between P. diffusa and three other ampullariids . The results were visualized as a Circos graph made using Circoletto .…”

Section: Methodsmentioning

confidence: 99%

“…28 In addition, a BLASTp search with E-value threshold of 10 −5 was conducted to compare the PVF composition between P. diffusa and three other ampullariids. 8,17,18 The results were visualized as a Circos graph made using Circoletto. 29 Putative orthogroups among P. diffusa, P. canaliculata, P. maculata and M. cornuarietis were identified using OrthoMCL 30 under default settings (E-value threshold of 10 −5 and sequence identity ≥50%).…”

Section: Identification Of Pvf Proteinsmentioning

confidence: 99%

“…With the advance in high‐throughput liquid chromatography/tandem mass spectrometry (LC/MS/MS), proteomic analyses have been conducted for two aerial egg depositors P. canaliculate and P. maculate , which showed that both PV1 and PV2 contain several subunits. A similar study has also been conducted in Marisa cornuarietis , an underwater egg depositor, which revealed 36 PVF proteins .…”

Section: Introductionmentioning

confidence: 99%

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Egg perivitelline fluid proteome of a freshwater snail: Insight into the transition from aquatic to terrestrial egg deposition

Zhang

et al. 2020

Rapid Comm Mass Spectrometry

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Rationale Proteins from the egg perivitelline fluid (PVF) are assumed to play critical roles in embryonic development, but for many groups of animals their identities remain unknown. Identifying egg PVF proteins is a critical step towards understanding their functions including their roles in evolutionary transition in habitats. Methods We applied proteomic and transcriptomic analysis to investigate the PVF proteome of the eggs of Pomacea diffusa, an aerial ovipositing freshwater snail in the family Ampullariidae. The PVF proteins were separated with the sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS‐PAGE) method, and proteomic analysis was conducted using an LTQ Velos ion trap mass spectrometer coupled with liquid chromatography. Comparison of PVF proteomes and evolution analyses was performed between P. diffusa and other ampullariids. Results In total, 32 egg PVF proteins were identified from P. diffusa. They were categorized as PV1‐like subunits, immune‐responsive proteins, protein degradation, signaling and binding, transcription and translation, metabolism, oxidation–reduction and proteins with unknown function. Interestingly, the proteome includes a calcium‐binding protein important in forming the hard eggshell that enabled the terrestrial transition. However, it does not include PV2, a neurotoxic protein that was assumed to be present in all Pomacea species. Conclusions The PVF proteome data from P. diffusa can help us better understand the roles that reproductive proteins played during the transition from underwater to terrestrial egg deposition. Moreover, they could be useful in comparative studies of the terrestrialization in several groups of animals that occurred independently during their evolution.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Identification Of Pvf Proteinsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Egg perivitelline fluid proteome of a freshwater snail: Insight into the transition from aquatic to terrestrial egg deposition

Zhang

et al. 2020

Rapid Comm Mass Spectrometry

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“…raw fileHow data was acquiredSDS-PAGE, strong cation exchange (SCX) chromatography, and LTQ-Orbitrap Elite coupled to an Easy-nLC were used to acquire the proteomic data;Illumina Hiseq. 2000 sequencing was applied to acquire the transcriptomic data.Data formatAnalyzedExperimental factorsPerivitelline fluid of snail eggs laid within 12 h.Experimental featuresMass spectrometry was applied to determine the proteome profile of the egg perivitelline fluid, and transcriptome sequencing was used to determine differential gene expression in different tissues.Data source locationDepartment of Biology, Hong Kong Baptist University, Hong Kong, ChinaData accessibilityData are available via ProteomeXchange with the identifier PXD006718Related research articleAn integrated proteomic and transcriptomic analysis of perivitelline fluid proteins in a freshwater gastropod laying aerial eggs [1]…”

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Dataset for the proteomic and transcriptomic analyses of perivitelline fluid proteins in Pomacea snail eggs

Sun

Heras

et al. 2017

Data in Brief

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This article describes how the proteomic and transcriptomic data were produced during a study of the reproductive proteins of Pomacea maculata, an aquatic apple snail laying colorful aerial eggs, and provides public access to the data. The data are related to a research article titled ‘An integrated proteomic and transcriptomic analysis of perivitelline fluid proteins in a freshwater gastropod laying aerial eggs’ (Mu et al., 2017) [1]. RNA was extracted from the albumen gland and other tissues and sequenced on an Illumina Hiseq. 2000. The assembled transcriptome was translated into protein sequences and then used for protein identification. Proteins from the perivitelline fluid of P. maculata were separated in SDS-PAGE and analyzed by LTQ-Orbitrap Elite coupled to an Easy-nLC. The translated transcriptome data are provided in this article. Proteomic data (.raw file format) are available via ProteomeXchange with the identifier PXD006718.

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The Sperm Proteome of the Echiuran Urechis unicinctus (Annelida, Echiura)

Qin

Zhang

et al. 2018

Proteomics

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Sperm proteins presumably play critical roles in reproduction, but in many non-model animals their identities are unknown. A total of 147 sperm proteins from the echiuran worm Urechis unicinctus, the first sperm proteome in the phylum Annelida, are reported. The echiuran sperm proteome can be classified into diverse functional groups: energy metabolism (31%), protein synthesis and degradation (18%), spermatogenesis and sperm motility (12%), signal pathway (11%), ion channel and transport proteins (6%), cytoskeleton (4%), immunity and stress responses (3%), and fertilization (1%). These results will facilitate studies of mechanisms of fertilization in echiurans, as well as comparative studies of reproduction and evolution across lophotrochozoans. Data are available via ProteomeXchange with identifier PXD009176.

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An integrated proteomic and transcriptomic analysis of perivitelline fluid proteins in a freshwater gastropod laying aerial eggs

Cited by 29 publications

References 62 publications

Egg perivitelline fluid proteome of a freshwater snail: Insight into the transition from aquatic to terrestrial egg deposition

Egg perivitelline fluid proteome of a freshwater snail: Insight into the transition from aquatic to terrestrial egg deposition

Dataset for the proteomic and transcriptomic analyses of perivitelline fluid proteins in Pomacea snail eggs

The Sperm Proteome of the Echiuran Urechis unicinctus (Annelida, Echiura)

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