Transcriptome-wide identification and characterization of the Sox gene family and microsatellites for Corbicula fluminea.

Abstract:

:The Asian clam, Corbicula fluminea, is a commonly consumed small freshwater bivalve in East Asia. However, available genetic information of this clam is still limited. In this study, the transcriptome of female C. fluminea was sequenced using the Illumina HiSeq 2500 platform. A total of 89,563 unigenes were assembled with an average length of 859 bp, and 36.7% of them were successfully annotated. Six members of Sox gene family namely SoxB1, SoxB2, SoxC, SoxD, SoxE and SoxF were identified. Based on these genes, the divergence time of C. fluminea was estimated to be around  476 million years ago. Furthermore, a total of 3,117 microsatellites were detected with a distribution density of 1:12,960 bp. Fifty of these microsatellites were randomly selected for validation, and 45 of them were successfully amplified with 31 polymorphic ones. The data obtained in this study will provide useful information for future genetic and genomic studies in C. fluminea.

journal_name

PeerJ

journal_title

PeerJ

authors

Zhu C,Zhang L,Ding H,Pan Z

doi

10.7717/peerj.7770

subject

Has Abstract

pub_date

2019-10-22 00:00:00

pages

e7770

issn

2167-8359

pii

7770

journal_volume

7

pub_type

杂志文章

相关文献

PeerJ文献大全
  • Rapid rise in toxic load for bees revealed by analysis of pesticide use in Great Britain.

    abstract::A strong argument can be made that the European Union has the most rigorous regulatory system for pesticides in the world, and that modern pesticide use poses fewer environmental threats than older regimes. Nevertheless, the impacts of pesticides on bees and other non-target organisms are much debated in Europe as els...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.5255

    authors: Goulson D,Thompson J,Croombs A

    更新日期:2018-07-19 00:00:00

  • Reproductive biology of the biofuel plant Jatropha curcas in its center of origin.

    abstract::In this work, we studied the main characteristics of flowering, reproductive system and diversity of pollinators for the biofuel plant Jatropha curcas (L.) in a site of tropical southeastern Mexico, within its center of origin. The plants were monoecious with inflorescences of unisexual flowers. The male flowers produ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.1819

    authors: Rincón-Rabanales M,Vargas-López LI,Adriano-Anaya L,Vázquez-Ovando A,Salvador-Figueroa M,Ovando-Medina I

    更新日期:2016-03-14 00:00:00

  • Androgen up-regulation of Twist1 gene expression is mediated by ETV1.

    abstract::Twist1, a basic helix-loop-helix transcription factor that regulates a number of genes involved in epithelial-to-mesenchymal transition (EMT), is upregulated in prostate cancer. Androgen regulation of Twist1 has been reported in a previous study. However, the mechanism of androgen regulation of the Twist1 gene is not ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.8921

    authors: Khatiwada P,Kannan A,Malla M,Dreier M,Shemshedini L

    更新日期:2020-04-09 00:00:00

  • A predictive model for canine dilated cardiomyopathy-a meta-analysis of Doberman Pinscher data.

    abstract::Dilated cardiomyopathy is a prevalent and often fatal disease in humans and dogs. Indeed dilated cardiomyopathy is the third most common form of cardiac disease in humans, reported to affect approximately 36 individuals per 100,000 individuals. In dogs, dilated cardiomyopathy is the second most common cardiac disease ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.842

    authors: Simpson S,Edwards J,Emes RD,Cobb MA,Mongan NP,Rutland CS

    更新日期:2015-03-26 00:00:00

  • Local villagers' perceptions of wolves in Jiuzhaigou County, western China.

    abstract::While there have been increasing numbers of reports of human-wolf conflict in China during recent years, little is known about the nature of this conflict. In this study, we used questionnaires and semi-structured interviews to investigate local villagers' perceptions of wolves in Jiuzhaigou County, western China. We ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.982

    authors: Xu Y,Yang B,Dou L

    更新日期:2015-06-09 00:00:00

  • Is right coronary artery chronic total vessel occlusion impacting the surgical revascularization results of patients with multivessel disease? A retrospective study.

    abstract:Introduction:Chronic total occlusion (CTO) is common in the presence of other significantly narrowed coronary arteries. The impact of total occlusion and its association with completeness of revascularization on patients with multivessel disease undergoing coronary artery bypass graft (CABG) remains largely unknown. A...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.4909

    authors: Konstanty-Kalandyk J,Bartuś K,Piątek J,Kędziora A,Darocha T,Bryniarski KL,Wróżek M,Ceranowicz P,Bartuś S,Bryniarski L,Kapelak B

    更新日期:2018-06-15 00:00:00

  • Increased risk of periodontitis in patients with psoriatic disease: a nationwide population-based retrospective cohort study.

    abstract:Aims:Periodontitis and psoriatic disease, including psoriasis (PS) and psoriatic arthritis (PsA), share the common risk factors and co-morbidities. However, the risk of periodontitis in patients with psoriatic disease still needs further investigation. This study was a nationwide population-based retrospective cohort s...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.4064

    authors: Su NY,Huang JY,Hu CJ,Yu HC,Chang YC

    更新日期:2017-11-16 00:00:00

  • A new species of Atrimitra Dall, 1918 (Gastropoda: Mitridae) from seamounts of the recently created Nazca-Desventuradas Marine Park, Chile.

    abstract::We describe Atrimitra isolata sp. n. (Gastropoda: Mitridae), collected on the summit of seamounts (~200 m water depth) in the vicinity of Desventuradas Islands, Chile insular territory. Additionally, we provide some insight into the habitat of this new species based on underwater imagery taken with a remotely operated...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.8279

    authors: Sellanes J,Salisbury RA,Tapia JM,Asorey CM

    更新日期:2019-12-20 00:00:00

  • Sizing ocean giants: patterns of intraspecific size variation in marine megafauna.

    abstract::What are the greatest sizes that the largest marine megafauna obtain? This is a simple question with a difficult and complex answer. Many of the largest-sized species occur in the world's oceans. For many of these, rarity, remoteness, and quite simply the logistics of measuring these giants has made obtaining accurate...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.715

    authors: McClain CR,Balk MA,Benfield MC,Branch TA,Chen C,Cosgrove J,Dove AD,Gaskins LC,Helm RR,Hochberg FG,Lee FB,Marshall A,McMurray SE,Schanche C,Stone SN,Thaler AD

    更新日期:2015-01-13 00:00:00

  • Relationship between vertical and horizontal force-velocity-power profiles in various sports and levels of practice.

    abstract::This study aimed (i) to explore the relationship between vertical (jumping) and horizontal (sprinting) force-velocity-power (FVP) mechanical profiles in a large range of sports and levels of practice, and (ii) to provide a large database to serve as a reference of the FVP profile for all sports and levels tested. A to...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.5937

    authors: Jiménez-Reyes P,Samozino P,García-Ramos A,Cuadrado-Peñafiel V,Brughelli M,Morin JB

    更新日期:2018-11-13 00:00:00

  • Pico and nanoplankton abundance and carbon stocks along the Brazilian Bight.

    abstract::Pico and nanoplankton communities from the Southwest Atlantic Ocean along the Brazilian Bight are poorly described. The hydrography in this region is dominated by a complex system of layered water masses, which includes the warm and oligotrophic Tropical Water (TW), the cold and nutrient rich South Atlantic Central Wa...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.2587

    authors: Gérikas Ribeiro C,Lopes Dos Santos A,Marie D,Helena Pellizari V,Pereira Brandini F,Vaulot D

    更新日期:2016-11-10 00:00:00

  • Threshold-like associations as a function of disturbance.

    abstract::According to the intelligence-creativity threshold hypothesis, there should be a positive association between intelligence and creative potential up to a certain point, the threshold, after which a further increase in intelligence should have no association with creativity. In the present simulation study, the measure...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.7891

    authors: Sorjonen K,Ingre M,Melin B

    更新日期:2019-10-21 00:00:00

  • Integrated genomic analyses of lung squamous cell carcinoma for identification of a possible competitive endogenous RNA network by means of TCGA datasets.

    abstract::The etiology of cancer includes aberrant cellular homeostasis where a compromised RNA regulatory network is a prominent contributing factor. In particular, noncoding RNAs including microRNAs (miRNAs) and long noncoding RNAs (lncRNAs) were recently shown to play important roles in the initiation, progression, and metas...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.4254

    authors: Ning P,Wu Z,Hu A,Li X,He J,Gong X,Xia Y,Shang Y,Bian H

    更新日期:2018-01-12 00:00:00

  • Phylogenetic and morphologic evidence confirm the presence of a new montane cloud forest associated bird species in Mexico, the Mountain Elaenia (Elaenia frantzii; Aves: Passeriformes: Tyrannidae).

    abstract::Here we provide evidence to support an extension of the recognized distributional range of the Mountain Elaenia (Elaenia frantzii) to include southern Mexico. We collected two specimens in breeding condition in northwestern Sierra Norte de Chiapas, Mexico. Morphologic and genetic evidence support their identity as Ela...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.1598

    authors: Hanna ZR,Ortiz-Ramírez MF,Ríos-Muñoz CA,Cayetano-Rosas H,Bowie RC,Navarro-Sigüenza AG

    更新日期:2016-02-01 00:00:00

  • Rosiglitazone accelerates wound healing by improving endothelial precursor cell function and angiogenesis in db/db mice.

    abstract:Background & Aims:Endothelial precursor cell (EPC) dysfunction is one of the risk factors for diabetes mellitus (DM) which results in delayed wound healing. Rosiglitazone (RSG) is a frequently prescribed oral glucose-lowering drug. Previous studies have shown the positive effects of RSG on ameliorating EPC dysfunction ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.7815

    authors: Zhou G,Han X,Wu Z,Shi Q,Bao X

    更新日期:2019-10-17 00:00:00

  • Maternal ancestry analyses of red tilapia strains based on D-loop sequences of seven tilapia populations.

    abstract:Background:Many tilapia species or varieties have been widely introduced and have become an economically important food fish in China. Information on the genetic backgrounds of these populations is deficient and requires more research, especially for red tilapia strains. Methods:In the present study, displacement loop...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.7007

    authors: Jiang B,Fu J,Dong Z,Fang M,Zhu W,Wang L

    更新日期:2019-05-29 00:00:00

  • Evolution of genes involved in feeding preference and metabolic processes in Calliphoridae (Diptera: Calyptratae).

    abstract:BACKGROUND:The genotype-phenotype interactions among traits governing feeding preference are of fundamental importance to behavioral genetics and evolutionary biology. The genetic basis of behavioral traits has been explored in different taxa using different approaches. However, the complex nature of the genetic mechan...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.2598

    authors: Cardoso GA,Marinho MA,Monfardini RD,Espin AM,Torres TT

    更新日期:2016-10-27 00:00:00

  • On the diversity of the SE Indo-Pacific species of Terebellides (Annelida; Trichobranchidae), with the description of a new species.

    abstract::The study of material collected during routine monitoring surveys dealing with oil extraction and aquaculture in waters off Myanmar (North Andaman Sea) and in the Gulf of Thailand, respectively, allowed us to analyse the taxonomy and diversity of the polychaete genus Terebellides (Annelida). Three species were found, ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.2313

    authors: Parapar J,Moreira J,Martin D

    更新日期:2016-08-16 00:00:00

  • Impact of exposure to tobacco smoke, arsenic, and phthalates on locally advanced cervical cancer treatment-preliminary results.

    abstract:BACKGROUND:Cancer research is a national and international priority, with the efficiency and effectiveness of current anti-tumor therapies being one of the major challenges with which physicians are faced. OBJECTIVE:To assess the impact of exposure to tobacco smoke, arsenic, and phthalates on cervical cancer treatment...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.2448

    authors: Neamtiu IA,Bloom MS,Dumitrascu I,Roba CA,Pop C,Ordeanu C,Balacescu O,Gurzau ES

    更新日期:2016-09-08 00:00:00

  • Chemical analysis and evaluation of antioxidant and antimicrobial activities of fruit fractions of Mauritia flexuosa L. f. (Arecaceae).

    abstract:Background:Fruit consumption is currently considered beyond the nutritional aspects because of the important roles in disease prevention and benefits to health. The objective of this study was to characterize the chemical profile and evaluate the antioxidant and antimicrobial properties of different fractions obtained ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.5991

    authors: Nonato CFA,Leite DOD,Pereira RC,Boligon AA,Ribeiro-Filho J,Rodrigues FFG,da Costa JGM

    更新日期:2018-11-28 00:00:00

  • Gamma-H2AX biodosimetry for use in large scale radiation incidents: comparison of a rapid '96 well lyse/fix' protocol with a routine method.

    abstract::Following a radiation incident, preliminary dose estimates made by γ-H2AX foci analysis can supplement the early triage of casualties based on clinical symptoms. Sample processing time is important when many individuals need to be rapidly assessed. A protocol was therefore developed for high sample throughput that req...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.282

    authors: Moquet J,Barnard S,Rothkamm K

    更新日期:2014-03-06 00:00:00

  • Artificial neural network cascade identifies multi-P450 inhibitors in natural compounds.

    abstract::Substantial evidence has shown that most exogenous substances are metabolized by multiple cytochrome P450 (P450) enzymes instead of by merely one P450 isoform. Thus, multi-P450 inhibition leads to greater drug-drug interaction risk than specific P450 inhibition. Herein, we innovatively established an artificial neural...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.1524

    authors: Li Z,Li Y,Sun L,Tang Y,Liu L,Zhu W

    更新日期:2015-12-21 00:00:00

  • Phyllosphere bacterial assembly in citrus crop under conventional and ecological management.

    abstract::Divergences between agricultural management can result in different types of biological interactions between plants and microorganisms, which may affect food quality and productivity. Conventional practices are well-established in the agroindustry as very efficient and lucrative; however, the increasing demand for sus...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.9152

    authors: Carvalho CR,Dias AC,Homma SK,Cardoso EJ

    更新日期:2020-06-02 00:00:00

  • HAHap: a read-based haplotyping method using hierarchical assembly.

    abstract:Background:The need for read-based phasing arises with advances in sequencing technologies. The minimum error correction (MEC) approach is the primary trend to resolve haplotypes by reducing conflicts in a single nucleotide polymorphism-fragment matrix. However, it is frequently observed that the solution with the opti...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.5852

    authors: Lin YY,Wu PC,Chen PL,Oyang YJ,Chen CY

    更新日期:2018-10-30 00:00:00

  • Spatial modeling of long-term air temperatures for sustainability: evolutionary fuzzy approach and neuro-fuzzy methods.

    abstract::This paper investigates the capabilities of the evolutionary fuzzy genetic (FG) approach and compares it with three neuro-fuzzy methods-neuro-fuzzy with grid partitioning (ANFIS-GP), neuro-fuzzy with subtractive clustering (ANFIS-SC), and neuro-fuzzy with fuzzy c-means clustering (ANFIS-FCM)-in terms of modeling long-...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.8882

    authors: Sadeghi-Niaraki A,Kisi O,Choi SM

    更新日期:2020-08-14 00:00:00

  • Contributions of Latin American researchers in the understanding of the novel coronavirus outbreak: a literature review.

    abstract::This article aimed to give the visibility of Latin American researchers' contributions to the comprehension of COVID-19; our method was a literature review. Currently, the world is facing a health and socioeconomic crisis caused by the novel coronavirus, SARS-CoV-2, and its disease COVID-19. Therefore, in less than 4 ...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.9332

    authors: Fiesco-Sepúlveda KY,Serrano-Bermúdez LM

    更新日期:2020-06-04 00:00:00

  • Analysis of prognostic genes in the tumor microenvironment of lung adenocarcinoma.

    abstract:Background:Prognostic genes in the tumor microenvironment play an important role in immune biological processes and the response of cancer to immunotherapy. Thus, we aimed to assess new biomarkers that are associated with immune/stromal cells in lung adenocarcinomas (LUAD) using the ESTIMATE algorithm, which also signi...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.9530

    authors: Xu ZY,Zhao M,Chen W,Li K,Qin F,Xiang WW,Sun Y,Wei J,Yuan LQ,Li SK,Lin SH

    更新日期:2020-07-23 00:00:00

  • Quotation accuracy in medical journal articles-a systematic review and meta-analysis.

    abstract::Background. Quotations and references are an indispensable element of scientific communication. They should support what authors claim or provide important background information for readers. Studies indicate, however, that quotations not serving their purpose-quotation errors-may be prevalent. Methods. We carried out...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.1364

    authors: Jergas H,Baethge C

    更新日期:2015-10-27 00:00:00

  • Influence of adiposity and fatigue on the scapular muscle recruitment order.

    abstract:Background:Several authors have indicated that excess body weight can modify the electromyographic (EMG) amplitude due to the accumulation of subcutaneous fat. This accumulation of adipose tissue around the muscle would affect the metabolic capacity during functional activities. On the other hand, some authors have not...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.7175

    authors: Mendez-Rebolledo G,Guzman-Muñoz E,Ramírez-Campillo R,Valdés-Badilla P,Cruz-Montecinos C,Morales-Verdugo J,Berral de la Rosa FJ

    更新日期:2019-06-25 00:00:00

  • ZFPM2-AS1 promotes the proliferation, migration, and invasion of human non-small cell lung cancer cells involving the JAK-STAT and AKT pathways.

    abstract:Purpose:Recent studies have determined that long non-coding RNAs (lncRNAs) are potential prognostic biomarkers for non-small cell lung cancers (NSCLCs). The purpose of this study was to analyze the function and associated pathways of zinc finger protein multitype 2 antisense RNA 1 (ZFPM2-AS1) in NSCLC cells. Methods:W...

    journal_title:PeerJ

    pub_type: 杂志文章

    doi:10.7717/peerj.10225

    authors: Wang X,Tang J,Zhao J,Lou B,Li L

    更新日期:2020-10-26 00:00:00