Relevant bibliographies by topics / Comparative transcriptomic

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  1. Journal articles
  2. Dissertations / Theses
  3. Book chapters
  4. Conference papers

Academic literature on the topic 'Comparative transcriptomic'

Author: Grafiati
Published: 4 June 2021
Last updated: 1 February 2022

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Journal articles on the topic "Comparative transcriptomic"

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Rossouw, Debra, Adri H. van den Dool, Dan Jacobson, and Florian F. Bauer. "Comparative Transcriptomic and Proteomic Profiling of Industrial Wine Yeast Strains." Applied and Environmental Microbiology 76, no. 12 (2010): 3911–23. http://dx.doi.org/10.1128/aem.00586-10.

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ABSTRACT The geno- and phenotypic diversity of commercial Saccharomyces cerevisiae wine yeast strains provides an opportunity to apply the system-wide approaches that are reasonably well established for laboratory strains to generate insight into the functioning of complex cellular networks in industrial environments. We have previously analyzed the transcriptomes of five industrial wine yeast strains at three time points during alcoholic fermentation. Here, we extend the comparative approach to include an isobaric tag for relative and absolute quantitation (iTRAQ)-based proteomic analysis of
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Udaondo, Zulema, Kanchana Sittikankaew, Tanaporn Uengwetwanit, et al. "Comparative Analysis of PacBio and Oxford Nanopore Sequencing Technologies for Transcriptomic Landscape Identification of Penaeus monodon." Life 11, no. 8 (2021): 862. http://dx.doi.org/10.3390/life11080862.

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With the advantages that long-read sequencing platforms such as Pacific Biosciences (Menlo Park, CA, USA) (PacBio) and Oxford Nanopore Technologies (Oxford, UK) (ONT) can offer, various research fields such as genomics and transcriptomics can exploit their benefits. Selecting an appropriate sequencing platform is undoubtedly crucial for the success of the research outcome, thus there is a need to compare these long-read sequencing platforms and evaluate them for specific research questions. This study aims to compare the performance of PacBio and ONT platforms for transcriptomic analysis by ut
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Miles, Lindsay S., Nadia A. Ayoub, Jessica E. Garb, Robert A. Haney, and Brian C. Verrelli. "Ovarian Transcriptomic Analyses in the Urban Human Health Pest, the Western Black Widow Spider." Genes 11, no. 1 (2020): 87. http://dx.doi.org/10.3390/genes11010087.

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Due to their abundance and ability to invade diverse environments, many arthropods have become pests of economic and health concern, especially in urban areas. Transcriptomic analyses of arthropod ovaries have provided insight into life history variation and fecundity, yet there are few studies in spiders despite their diversity within arthropods. Here, we generated a de novo ovarian transcriptome from 10 individuals of the western black widow spider (Latrodectus hesperus), a human health pest of high abundance in urban areas, to conduct comparative ovarian transcriptomic analyses. Biological
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Armstrong, Eric J., and Jonathon H. Stillman. "Construction and Characterization of Two Novel Transcriptome Assemblies in the Congeneric Porcelain Crabs Petrolisthes cinctipes and P. manimaculis." Integrative and Comparative Biology 56, no. 6 (2016): 1092–102. http://dx.doi.org/10.1093/icb/icw043.

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Crustaceans have commonly been used as non-model systems in basic biological research, especially physiological regulation. With the recent and rapid adoption of functional genomic tools, crustaceans are increasingly becoming model systems for ecological investigations of development and evolution and for mechanistic examinations of genotype–phenotype interactions and molecular pathways of response to environmental stressors. Comparative transcriptomic approaches, however, remain constrained by a lack of sequence data in closely related crustacean taxa. We identify challenges in the use of fun
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Gross, Joshua B., Dennis A. Sun, Brian M. Carlson, Sivan Brodo-Abo, and Meredith E. Protas. "Developmental Transcriptomic Analysis of the Cave-Dwelling Crustacean, Asellus aquaticus." Genes 11, no. 1 (2019): 42. http://dx.doi.org/10.3390/genes11010042.

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Cave animals are a fascinating group of species often demonstrating characteristics including reduced eyes and pigmentation, metabolic efficiency, and enhanced sensory systems. Asellus aquaticus, an isopod crustacean, is an emerging model for cave biology. Cave and surface forms of this species differ in many characteristics, including eye size, pigmentation, and antennal length. Existing resources for this species include a linkage map, mapped regions responsible for eye and pigmentation traits, sequenced adult transcriptomes, and comparative embryological descriptions of the surface and cave
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Tong, Xiangrong, Debin Wang, and Zichao Liu. "Comparative transcriptomic analysis between two leech species." Toxicon 158 (February 2019): S82—S83. http://dx.doi.org/10.1016/j.toxicon.2018.10.282.

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Mohamed, Amin R., Cheong Xin Chan, Mark A. Ragan, et al. "Comparative transcriptomic analyses of Chromera and Symbiodiniaceae." Environmental Microbiology Reports 12, no. 4 (2020): 435–43. http://dx.doi.org/10.1111/1758-2229.12859.

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Franck, Sooyoung, William L. Franck, Sean R. Birke, et al. "Comparative transcriptomic analysis of symbiotic Bradyrhizobium japonicum." Symbiosis 63, no. 3 (2014): 123–35. http://dx.doi.org/10.1007/s13199-014-0294-y.

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Rahnama, Mostafa, Paul Maclean, Damien J. Fleetwood, and Richard D. Johnson. "VelA and LaeA are Key Regulators of Epichloë festucae Transcriptomic Response during Symbiosis with Perennial Ryegrass." Microorganisms 8, no. 1 (2019): 33. http://dx.doi.org/10.3390/microorganisms8010033.

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VelA (or VeA) is a key global regulator in fungal secondary metabolism and development which we previously showed is required during the symbiotic interaction of Epichloë festucae with perennial ryegrass. In this study, comparative transcriptomic analyses of ∆velA mutant compared to wild-type E. festucae, under three different conditions (in culture, infected seedlings, and infected mature plants), were performed to investigate the impact of VelA on E. festucae transcriptome. These comparative transcriptomic studies showed that VelA regulates the expression of genes encoding proteins involved
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Huang, Kuo-Yang, Po-Jung Huang, Fu-Man Ku, Rose Lin, John F. Alderete, and Petrus Tang. "Comparative Transcriptomic and Proteomic Analyses of Trichomonas vaginalis following Adherence to Fibronectin." Infection and Immunity 80, no. 11 (2012): 3900–3911. http://dx.doi.org/10.1128/iai.00611-12.

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ABSTRACTThe morphological transformation ofTrichomonas vaginalisfrom an ellipsoid form in batch culture to an adherent amoeboid form results from the contact of parasites with vaginal epithelial cells and with immobilized fibronectin (FN), a basement membrane component. This suggests host signaling of the parasite. We applied integrated transcriptomic and proteomic approaches to investigate the molecular responses ofT. vaginalisupon binding to FN. A transcriptome analysis was performed by using large-scale expressed-sequence-tag (EST) sequencing. A total of 20,704 ESTs generated from batch cul
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Dissertations / Theses on the topic "Comparative transcriptomic"

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Alasvand, Zarasvand Azita. "Comparative Analysis of Zinc Oxide Nanoparticles Induced Transcriptomic Responses in Arabidopsis." Thesis, North Dakota State University, 2019. https://hdl.handle.net/10365/31694.

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The impact that zinc oxide nanoparticles (ZnONP) have on plant physiological responses was evaluated by comparing gene expression changes after Arabidopsis thaliana plants were exposed to ZnONP, in comparison with ionic Zn2+ (ZnSO4) and non-treated controls. After treatment with ZnONP (concentration10 μg L−1), ionic Zn2+ (applied as ZnSO4 at a concentration of 19.7 μg/ L −1), expression analyses via RNA sequencing revealed that 369 genes were down regulated and 249 were upregulated (p < [FDR] 0.05, expression difference < 3). The downregulated genes in ZnONP treated seedlings compared to the Z
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Mutwil, Marek. "Integrative transcriptomic approaches to analyzing plant co-expression networks." Phd thesis, Universität Potsdam, 2011. http://opus.kobv.de/ubp/volltexte/2011/5075/.

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It is well documented that transcriptionally coordinated genes tend to be functionally related, and that such relationships may be conserved across different species, and even kingdoms. (Ihmels et al., 2004). Such relationships was initially utilized to reveal functional gene modules in yeast and mammals (Ihmels et al., 2004), and to explore orthologous gene functions between different species and kingdoms (Stuart et al., 2003; Bergmann et al., 2004). Model organisms, such as Arabidopsis, are readily used in basic research due to resource availability and relative speed of data acquisition. A
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Vernon, Caroline. "Transcriptomic Assessment of Gene Responses to Environmental Stress - Genetic and Comparative Approaches." Thesis, University of Liverpool, 2007. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.485870.

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WU, HONGLI. "Characterization of Pleurotus ostreatus mutants defective in lignin degradation using reverse genetic and comparative transcriptomic analyses." Kyoto University, 2020. http://hdl.handle.net/2433/259750.

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Kyoto University (京都大学)<br>0048<br>新制・課程博士<br>博士(農学)<br>甲第22854号<br>農博第2437号<br>新制||農||1082(附属図書館)<br>学位論文||R2||N5314(農学部図書室)<br>京都大学大学院農学研究科地域環境科学専攻<br>(主査)教授 本田 与一, 教授 田中 千尋, 准教授 坂本 正弘<br>学位規則第4条第1項該当
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Ullrich, Sophie. "Genomic and transcriptomic characterization of novel iron oxidizing bacteria of the genus “Ferrovum“." Doctoral thesis, Technische Universitaet Bergakademie Freiberg Universitaetsbibliothek "Georgius Agricola", 2016. http://nbn-resolving.de/urn:nbn:de:bsz:105-qucosa-205981.

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Acidophilic iron oxidizing bacteria of the betaproteobacterial genus “Ferrovum” are ubiquitously distributed in acid mine drainage (AMD) habitats worldwide. Since their isolation and maintenance in the laboratory has proved to be extremely difficult, members of this genus are not accessible to a “classical” microbiological characterization with exception of the designated type strain “Ferrovum myxofaciens” P3G. The present study reports the characterization of “Ferrovum” strains at genome and transcriptome level. “Ferrovum” sp. JA12, “Ferrovum” sp. PN-J185 and “F. myxofaciens” Z-31 represent t
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Leroy, Quentin. "Etude par transcriptomique et génomique comparative de la pathogénicité de Coxiella burnetii : une approche puce à ADN." Thesis, Aix-Marseille 2, 2010. http://www.theses.fr/2010AIX20710/document.

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L’objectif de cette thèse a été d’enrichir nos connaissances sur les bactériesintracellulaires strictes et spécialement Coxiella burnetii, agent responsable de la fièvre Q.Pour ce faire, nous avons d’une part amélioré les techniques de préparation de l’ARN pourles études transcriptionnelles et d’autre part utilisé la technologie des puces à ADN pouranalyser le transcriptome ainsi que la diversité génomique de C. burnetii.L’utilisation d’échantillons cliniques dans les études transcriptionnelles est limitéepar la quantité de matériel disponible qui ne permet pas d’analyser simultanément les pro
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Al-Twaim, Sarah. "Comparative transcriptomic and proteomic investigation of host cell responses during Toxoplasma gondii and Neospora caninum invasion of human astrocytes." Thesis, University of Liverpool, 2014. http://livrepository.liverpool.ac.uk/2008149/.

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Toxoplasma gondii and Neospora caninum are intracellular protozoan parasites from the phylum Apicomplexa. Both parasites share many morphological and genetic features, but have diverse host preferences. While T. gondii can infect any warm-blooded animal including humans, N. caninum does not. The basis of host preference in these two parasites is unknown, but could be due to differences in tropism to specific host cells. The discovery of differences between host cell responses could lead to a better understanding to why T. gondii can lead to disease in humans and N. caninum cannot, specifically
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Noguero, Mélanie. "Contribution de l'albumen au développement de la graine chez Medicago truncatula : caractérisation d'un facteur de transcription de type DOF exprimé dans l'albumen chalazal." Thesis, Dijon, 2014. http://www.theses.fr/2014DIJOS022/document.

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Dans un contexte actuel qui tend vers une réduction d’intrants dans les systèmes de culture et une relance de la production de protéines végétales pour réduire la dépendance alimentaire de la France, la culture des légumineuses constitue une alternative. Les légumineuses à graines offrent une source riche en protéines pour l’alimentation animale et humaine. Au sein de l'UMR1347 Agroécologie, le pôle "déterminismes Génétiques et Environnementaux de l’Adaptation des Plantes à des Systèmes de culture Innovants" (GEAPSI) étudie via une approche multidisciplinaire (génétique, écophysiologie, physio
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Kamel, Laurent. "Caractérisation de protéines sécrétées du champignon Rhizophagus irregularis : criblage de leur effet sur l’établissement de la symbiose endomycorhizienne." Thesis, Toulouse 3, 2017. http://www.theses.fr/2017TOU30052.

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La symbiose mycorhizienne à arbuscule (MA) est une association mutualiste s’établissant entre les racines des plantes et des champignons du sol appartenant à l’embranchement des Gloméromycètes. Dans cette association, le champignon agit comme un fertilisant naturel, fournissant à la plante divers minéraux (phosphore, mais aussi azote et soufre …) en échange de sources de carbone indispensables à son développement. Une caractéristique originale de ces champignons est leur très large spectre d’hôte : de l’ordre de 80% des espèces végétales ont l’aptitude à former cette symbiose, et certains espè
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Vaughn, Roy. "Comparative Developmental Transcriptomics of Echinoderms." Scholar Commons, 2012. http://scholarcommons.usf.edu/etd/4245.

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The gastrula stage represents the point in development at which the three primary germ layers diverge. At this point the gene regulatory networks that specify the germ layers are established and the genes that define the differentiated states of the tissues have begun to be activated. These networks have been well characterized in sea urchins, but not in other echinoderms. Embryos of the brittle star Ophiocoma wendtii share a number of developmental features with sea urchin embryos, including the ingression of mesenchyme cells that give rise to an embryonic skeleton. Notable differences are th
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Book chapters on the topic "Comparative transcriptomic"

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Russo, Jose, and Irma H. Russo. "Comparative Effects of the Preventive Effect of Pregnancy, Steroidal Hormones, and hCG in the Transcriptomic Profile of the Rat Mammary Gland." In Role of the Transcriptome in Breast Cancer Prevention. Springer US, 2012. http://dx.doi.org/10.1007/978-1-4614-4884-6_3.

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Thompson, Dawn A. "Comparative Transcriptomics in Yeasts." In Methods in Molecular Biology. Springer New York, 2016. http://dx.doi.org/10.1007/978-1-4939-3079-1_4.

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Moreira-Filho, Carlos Alberto, Silvia Yumi Bando, Fernanda Bernardi Bertonha, Filipi Nascimento Silva, Luciano da Fontoura Costa, and Magda Carneiro-Sampaio. "Thymus Gene Coexpression Networks: A Comparative Study in Children with and Without Down Syndrome." In Transcriptomics in Health and Disease. Springer International Publishing, 2014. http://dx.doi.org/10.1007/978-3-319-11985-4_7.

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Lefèvre, Christophe M., Karensa Menzies, Julie A. Sharp, and Kevin R. Nicholas. "Comparative Genomics and Transcriptomics of Lactation." In Evolutionary Biology – Concepts, Molecular and Morphological Evolution. Springer Berlin Heidelberg, 2010. http://dx.doi.org/10.1007/978-3-642-12340-5_7.

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Shi, Shuobo, Tao Chen, and Xueming Zhao. "Comparative Transcriptome Analysis for Metabolic Engineering." In Methods in Molecular Biology. Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-299-5_22.

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Rodríguez-García, Antonio, Alberto Sola-Landa, and Carlos Barreiro. "RNA-Seq-Based Comparative Transcriptomics: RNA Preparation and Bioinformatics." In Microbial Steroids. Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-7183-1_5.

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Li, Jun, Hairong Wei, Tingsong Liu, Xinbin Dai, and Patrick Xuechun Zhao. "LegumeIP: An Integrative Platform for Comparative Genomics and Transcriptomics of Model Legumes." In Biological Nitrogen Fixation. John Wiley & Sons, Inc, 2015. http://dx.doi.org/10.1002/9781119053095.ch80.

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Gruninger, Robert J., Ian Reid, Robert J. Forster, Adrian Tsang, and Tim A. McAllister. "Identification of Genes Involved in the Degradation of Lignocellulose Using Comparative Transcriptomics." In Methods in Molecular Biology. Springer New York, 2017. http://dx.doi.org/10.1007/978-1-4939-6899-2_21.

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Ying, Bei-Wen, and Tetsuya Yomo. "Comparative Analyses of Bacterial Transcriptome Reorganisation in Response to Temperature Increase." In Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria. John Wiley & Sons, Inc., 2016. http://dx.doi.org/10.1002/9781119004813.ch73.

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Kruse, Thomas, Hauke Smidt, and Ute Lechner. "Comparative Genomics and Transcriptomics of Organohalide-Respiring Bacteria and Regulation of rdh Gene Transcription." In Organohalide-Respiring Bacteria. Springer Berlin Heidelberg, 2016. http://dx.doi.org/10.1007/978-3-662-49875-0_15.

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Conference papers on the topic "Comparative transcriptomic"

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Guidolin, Aline. "Spiroplasma-Toxoptera citricidainteractions: From comparative biology to transcriptomic analysis." In 2016 International Congress of Entomology. Entomological Society of America, 2016. http://dx.doi.org/10.1603/ice.2016.117760.

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Mao, Binchen, Sheng Guo, Bonnie Xiaobo Chen, Davy Xuesong Ouyang, and Henry Li. "Abstract A025: Comparative analysis of proteomic/transcriptomic profiles of a panel of GC-PDXs." In Abstracts: AACR-NCI-EORTC International Conference on Molecular Targets and Cancer Therapeutics; October 26-30, 2019; Boston, MA. American Association for Cancer Research, 2019. http://dx.doi.org/10.1158/1535-7163.targ-19-a025.

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Moog, Marie, Christopher A. Hinze, Regina Maus, et al. "Comparative transcriptomic profiling of CD4+ T cells in two models of lung fibrosis in mice." In ERS International Congress 2020 abstracts. European Respiratory Society, 2020. http://dx.doi.org/10.1183/13993003.congress-2020.3493.

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Alexander, M. J., G. Gadhvi, J. M. Walter, et al. "Comparative Transcriptomic Analysis of Bronchoalveolar Lavage Immune Cells in Sarcoidosis Reveals Disease Emergent Populations of Alveolar Macrophages." In American Thoracic Society 2020 International Conference, May 15-20, 2020 - Philadelphia, PA. American Thoracic Society, 2020. http://dx.doi.org/10.1164/ajrccm-conference.2020.201.1_meetingabstracts.a3109.

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Nelson, Garret B., Sheau-Fung Y. Thai, Carlton P. Jones, Audrey Barbee, Micaela Killius, and Jeffrey A. Ross. "Abstract 2814: Comparative DNA damage and transcriptomic effects of engineered nanoparticles in human lung cells in vitro." In Proceedings: AACR 107th Annual Meeting 2016; April 16-20, 2016; New Orleans, LA. American Association for Cancer Research, 2016. http://dx.doi.org/10.1158/1538-7445.am2016-2814.

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Kusakin, P. G., T. A. Serova, N. E. Gogoleva, Yu V. Gogolev, and V. E. Tsyganov. "Transcriptome analysis of pea (Pisum sativum L.) symbiotic nodules using laser capture microdissection." In 2nd International Scientific Conference "Plants and Microbes: the Future of Biotechnology". PLAMIC2020 Organizing committee, 2020. http://dx.doi.org/10.28983/plamic2020.146.

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Abdel-Fatah, TMA, D. Agarwal, D. Zafeiris, et al. "Abstract P6-09-16: Identification of proliferation related derivers and their roles in precision medicine for breast cancers: A retrospective multidimensional comparative, integrated genomic, transcriptomic, and protein analysis." In Abstracts: 2016 San Antonio Breast Cancer Symposium; December 6-10, 2016; San Antonio, Texas. American Association for Cancer Research, 2017. http://dx.doi.org/10.1158/1538-7445.sabcs16-p6-09-16.

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Vetchinkina, E. P., V. Yu Gorshkov, N. E. Gogoleva, Yu V. Gogolev, and V. E. Nikitina. "Comparative analysis of transcriptomes of different morphological structures of the basidiomycete Lentinus edodes." In 2nd International Scientific Conference "Plants and Microbes: the Future of Biotechnology". PLAMIC2020 Organizing committee, 2020. http://dx.doi.org/10.28983/plamic2020.270.

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A comparative analysis of transcriptomes at the vegetative and generative stages of the development of Lentinus edodes basidiomycetes was carried out. The nature of differential gene expression was described, and the activated/repressed metabolic pathways were visualized.
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Pavlenko, O. S., N. S. Sadovskaya, O. N. Mustafayev, Yu V. Akashkina, and I. V. Goldenkova-Pavlova. "Transcriptome analysis of Euonymus europaeus fruits at different stages of development." In 2nd International Scientific Conference "Plants and Microbes: the Future of Biotechnology". PLAMIC2020 Organizing committee, 2020. http://dx.doi.org/10.28983/plamic2020.193.

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The transcript Euonymus europaeus was collected de novo. A comparative analysis of transcriptomes from the stage of the globular embryo and the mature fruit made it possible to identify key DGAT genes at the contrasting stages of the development of E. europaeus fruits.
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Cohen, Chris M. "Searching for venom: Comparative transcriptomics in robber flies (Diptera: Asilidae)." In 2016 International Congress of Entomology. Entomological Society of America, 2016. http://dx.doi.org/10.1603/ice.2016.111536.

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