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| Registros recuperados: 12 | |
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| Gong,Zhen; Liu,Jianyun; Xie,Xin; Xu,Xiaoyuan; Wu,Ping; Li,Huimin; Wang,Yaqin; Li,Weidong; Xiong,Jianjun. |
| Abstract The ubiquitin-specific protease 22 (USP22) is an oncogene and its expression is upregulated in many types of cancer. In the nucleus, USP22 functions as one subunit of the SAGA to regulate gene transcription. However, the genome-wide USP22 binding sites and its direct target genes are yet clear. In this study, we characterized the potential genomic binding sites of UPS22 and GCN5 by ChIP-seq using specific antibodies in HeLa cells. There were 408 overlapping putative target genes bound by both USP22 and GCN5. Motif analysis showed that the sequences bound by USP22 and GCN5 shared two common motifs. Gene ontology (GO) and pathway analysis indicated that the genes targeted by USP22 and GCN5 were involved in different physiological processes and... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: USP22; Target genes; ChIP-seq; Knockdown; RNA-seq. |
| Ano: 2018 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572018000300488 |
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| Piórkowska,Katarzyna; Żukowski,Kacper; Ropka-Molik,Katarzyna; Tyra,Mirosław; Gurgul,Artur. |
| Abstract Pork is the most popular meat in the world. Unfortunately, the selection pressure focused on high meat content led to a reduction in pork quality. The present study used RNA-seq technology to identify metabolic process genes related to pork quality traits and fat deposition. Differentially expressed genes (DEGs) were identified between pigs of Pulawska and Polish Landrace breeds for two the most important muscles (semimembranosus and longissimus dorsi). A total of 71 significant DEGs were reported: 15 for longissimus dorsi and 56 for semimembranosus muscles. The genes overexpressed in Pulawska pigs were involved in lipid metabolism (APOD, LXRA, LIPE, AP2B1, ENSSSCG00000028753 and OAS2) and proteolysis (CST6, CTSD, ISG15 and UCHL1). In Polish... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: RNA-seq; Firmness; Fat content; Polish pigs. |
| Ano: 2018 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572018000100125 |
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| Zhou,Ying; Wu,Meili; Zhu,Hanting; Shao,Junjie; Liu,Chang; Cui,Yubao. |
| Abstract Long noncoding RNAs (lncRNAs), especially their important subclass of long intergenic noncoding RNAs (lincRNAs), have been identified in some insects. They play important roles in the regulation of biological processes, such as immune response or cell differentiation and as possible evolutionary precursors for protein coding genes. House dust mites (HDMs) are recognized as allergenic mites because allergens are found in their feces and bodies. Dermatophagoides farinae is one of the most important pyroglyphid mites because of its abundance in the household. To determine if lincRNAs can regulate allergen presentation in HDMs, we analyzed RNA-seq data for HDMs. We identified 11 lincRNAs that are related to mRNAs coding for allergens in HDMs. Using... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: House dust mites (HDMs); Dermatophagoides farinae; Long noncoding RNAs (lncRNAs); Allergen; RNA-seq. |
| Ano: 2020 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572020000100804 |
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| Shu,Yongjun; Li,Wei; Zhao,Jinyue; Zhang,Sijia; Xu,Hanyun; Liu,Ying; Guo,Changhong. |
| Abstract Alfalfa (Medicago sativa L.) is an important perennial forage, with high nutritional value, which is widely grown in the world. Because of low freezing tolerance, its distribution and production are threatened and limited by winter weather. To understand the complex regulation mechanisms of freezing tolerance in alfalfa, we performed transcriptome sequencing analysis under cold (4 °C) and freezing (-8 °C) stresses. More than 66 million reads were generated, and we identified 5767 transcripts differentially expressed in response to cold and/or freezing stresses. These results showed that these genes were mainly classified as response to stress, transcription regulation, hormone signaling pathway, antioxidant, nodule morphogenesis, etc., implying... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: Medicago sativa L.; RNA-seq; Freezing tolerance; C-repeat binding factors (CBF). |
| Ano: 2017 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000500824 |
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| Auffret, Pauline; Le Luyer, Jeremy; Sham Koua, Manaarii; Quillien, Virgile; Ky, Chin-long. |
| Background Albino mutations are commonly observed in the animal kingdom, including in bivalves. In the black-lipped pearl oyster Pinctada margaritifera, albino specimens are characterized by total or partial absence of colouration resulting in typical white shell phenotype expression. The relationship of shell colour with resulting cultured pearl colour is of great economic interest in P. margaritifera, on which a pearl industry is based. Hence, the albino phenotype provides a useful way to examine the molecular mechanisms underlying pigmentation. Results Whole transcriptome RNA-sequencing analysis comparing albino and black wild-type phenotypes at three stages over the culture cycle of P. margaritifera revealed a total of 1606, 798 and 187 differentially... |
| Tipo: Text |
Palavras-chave: Pinctada margaritifera; Albinism; Pigmentation; RNA-seq; Notch signaling pathway; Tyrosinase; Biomineralization. |
| Ano: 2020 |
URL: https://archimer.ifremer.fr/doc/00652/76420/77477.pdf |
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| Segura, Audrey; Bertoni, Marine; Auffret, Pauline; Klopp, Christophe; Bouchez, Olivier; Genthon, Clemence; Durand, Alexandra; Bertin, Yolande; Forano, Evelyne. |
| Background The cattle gastrointestinal tract (GIT) is the main enterohemorrhagic Escherichia coli (EHEC) reservoir. In order to identify nutrients required for the survival or multiplication of EHEC in the bovine GIT, we compared the transcriptomes of the EHEC O157:H7 reference strain EDL933 cultured in vitro in bovine digestive contents (DCs) (rumen, small intestine and rectum) using RNA-sequencing. Results Gene expression profiles showed that EHEC EDL933 activated common but also specific metabolic pathways to survive in the different bovine DCs. Mucus-derived carbohydrates seem important in EHEC nutrition in posterior DCs (small intestine and rectum) but not in rumen content. Additional carbohydrates (xylose, ribose, mannitol, galactitol) as well as... |
| Tipo: Text |
Palavras-chave: EHEC O157:H7; Bovine gastrointestinal tract; RNA-seq; Metabolism; Carbon sources; Mucus-derived carbohydrates; Ethanolamine; Respiration. |
| Ano: 2018 |
URL: https://archimer.ifremer.fr/doc/00464/57563/59734.pdf |
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| Le Luyer, Jeremy; Auffret, Pauline; Quillien, Virgile; Leclerc, Nicolas; Reisser, Celine; Vidal-dupiol, Jeremie; Ky, Chin-long. |
| Background Cultured pearls are unique gems produced by living organisms, mainly molluscs of the Pinctada genus, through the biomineralization properties of pearl sac tissue. Improvement of P. margaritifera pearl quality is one of the biggest challenges that Polynesian research has faced to date. To achieve this goal, a better understanding of the complex mechanisms related to nacre and pearl formation is essential and can now be approached through the use of massive parallel sequencing technologies. The aim of this study was to use RNA-seq to compare whole transcriptome expression of pearl sacs that had producing pearls with high and low quality. For this purpose, a comprehensive reference transcriptome of P. margaritifera was built based on... |
| Tipo: Text |
Palavras-chave: Pinctada margaritifera; Biomineralization; Pearl quality; Pearl sac; RNA-seq. |
| Ano: 2019 |
URL: https://archimer.ifremer.fr/doc/00475/58695/61207.pdf |
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| Shibao,Priscila Yumi Tanaka; Cologna,Camila Takeno; Morandi-Filho,Romualdo; Wiezel,Gisele Adriano; Fujimura,Patricia Tiemi; Ueira-Vieira,Carlos; Arantes,Eliane Candiani. |
| Abstract Background: Animal poisons and venoms are sources of biomolecules naturally selected. Rhinella schneideri toads are widespread in the whole Brazilian territory and they have poison glands and mucous gland. Recently, protein from toads’ secretion has gaining attention. Frog skin is widely known to present great number of host defense peptides and we hypothesize toads present them as well. In this study, we used a RNA-seq analysis from R. schneideri skin and biochemical tests with the gland secretion to unravel its protein molecules. Methods: Total RNA from the toad skin was extracted using TRizol reagent, sequenced in duplicate using Illumina Hiseq2500 in paired end analysis. The raw reads were trimmed and de novo assembled using Trinity. The... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: RNA-seq; Rhinella schneideri; Toad secretion; Transcriptome; Illumina; Cutaneous secretion; Skin secretion; Toad protein. |
| Ano: 2018 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1678-91992018000100326 |
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| Dou,Tong-Hai; Gao,Yuan; Chen,Cheng-Wen; Xu,Min-Jie; Fu,Mao-Bin; Zhang,Liang; Zhou,Yan. |
| ABSTRACT Background: Alternative splicing (AS), which plays an important role in gene expression and functional regulation, has been analyzed on genome-scale by various bioinformatic approaches based on RNA-seq data. Compared with the huge number of studies on mouse, the AS researches approaching the rat, whose genome is intermedia between mouse and human, were still limited. To enrich the knowledge on AS events in rodents' brain, we perfomed a comprehensive analysis on four transcriptome libraries (mouse cerebrum, mouse cerebellum, rat cerebrum, and rat cerebellum), recruiting high-throughput sequencing technology. An optimized exon-exon junction library approach was introduced to adapt the longer RNA-seq reads and to improve mapping efficiency.... |
| Tipo: Info:eu-repo/semantics/article |
Palavras-chave: RNA-seq; Exon-exon junction; Alternative splicing; Cerebrum; Cerebellum. |
| Ano: 2017 |
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132017000100400 |
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| Registros recuperados: 12 | |
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