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Keywords: transcriptomics
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Journal Articles
J Exp Biol (2023) 226 (1): jeb245191.
Published: 13 January 2023
... natural microbiomes. However, the mechanisms behind these effects are unclear. Here, we compared gene expression profiles of the tadpole gut transcriptome, and tadpole gut microbial metagenome, between colonized and depleted tadpoles under cool or warm conditions. Our goal was to identify differences...
Includes: Supplementary data
Journal Articles
J Exp Biol (2022) 225 (17): jeb244513.
Published: 7 September 2022
... to juvenile and adult life on the reef. Some species also change their lifestyle over this period and become nocturnal. While these ecological transitions are well documented, little is known about the ontogeny of nocturnal reef fish vision. Here, we used transcriptomics to investigate visual development...
Includes: Supplementary data
Journal Articles
J Exp Biol (2022) 225 (12): jeb244162.
Published: 27 June 2022
...Matt J. Thorstensen; Andy J. Turko; Daniel D. Heath; Ken M. Jeffries; Trevor E. Pitcher ABSTRACT Transcriptomic research provides a mechanistic understanding of an organism's response to environmental challenges such as increasing temperatures, which can provide key insights into the threats posed...
Includes: Supplementary data
Journal Articles
J Exp Biol (2022) 225 (8): jeb242424.
Published: 29 April 2022
... Atlantic salmon, aquaculture-related handling and confinement stress increases investment in seawater-related gene expression as part of a compensatory response to impaired seawater tolerance. Osmoregulation Stress Smolt Transcriptomics WGCNA Atlantic Salmon Federation Mount...
Includes: Supplementary data
Journal Articles
J Exp Biol (2022) 225 (7): jeb243630.
Published: 12 April 2022
... Hettige , P. , Tahir , U. , Nishikawa , K. C. and Gage , M. J. ( 2020 ). Comparative analysis of the transcriptomes of EDL, psoas, and soleus muscles from mice . BMC Genomics 21 , 808 . 10.1186/s12864-020-07225-2 Hill , A. V. ( 1938 ). The heat of shortening...
Includes: Supplementary data
Journal Articles
J Exp Biol (2021) 224 (16): jeb241885.
Published: 12 August 2021
.... 58 , 625 - 639 . 10.1111/fwb.12081 Connon , R. E. , Jeffries , K. M. , Komoroske , L. M. , Todgham , A. E. and Fangue , N. A. ( 2018 ). The utility of transcriptomics in fish conservation . J. Exp. Biol. 221 , jeb148833 . 10.1242/jeb.148833 Cooke , S. J...
Includes: Supplementary data
Journal Articles
J Exp Biol (2020) 223 (24): jeb191262.
Published: 17 December 2020
...Alex S. Torson; Yun-wei Dong; Brent J. Sinclair ‘Omics’ methods, such as transcriptomics, proteomics, lipidomics or metabolomics, yield simultaneous measurements of many related molecules in a sample. These approaches have opened new opportunities to generate and test hypotheses about...
Journal Articles
J Exp Biol (2020) 223 (7): jeb213975.
Published: 3 April 2020
... transcriptomic responses to temperature; more differentially expressed genes were upregulated in the field compared with lab larvae. Developmental temperature fluctuations alone had minimal effects on long-term gene expression patterns, with the exception of a somewhat elevated stress response in the lab...
Includes: Supplementary data
Journal Articles
J Exp Biol (2019) 222 (6): jeb188300.
Published: 18 March 2019
..., and on transcriptome analysis, C. monoculus exhibits extreme intraspecific variation in the use of vitamin A 1 /A 2 chromophore in their photoreceptors. Fish living in turbid water had higher proportions of vitamin A 2 , shifting sensitivities to longer wavelengths, than fish living in clear water. Furthermore, we...
Includes: Supplementary data
Journal Articles
J Exp Biol (2019) 222 (1): jeb192195.
Published: 10 January 2019
.../circadian transcriptomes ed. N. Cermakian . PLoS ONE   12 , e0169923 . 10.1371/journal.pone.0169923 Butler , A. , Hoffman , P. , Smibert , P. , Papalexi , E. and Satija , R. ( 2018 ). Integrating single-cell transcriptomic data across different conditions, technologies...
Includes: Supplementary data
Journal Articles
J Exp Biol (2018) 221 (3): jeb164400.
Published: 13 February 2018
... with the energetic metabolism of the mitochondria may then be compensation for the inefficiency of the malfunctioning mitochondria and replacement of cytochrome c lost to apoptosis signalling. The number of transcriptome elements (genes or isoforms) generated in molluscan studies varies substantially...
Includes: Supplementary data
Journal Articles
J Exp Biol (2017) 220 (12): 2149–2153.
Published: 15 June 2017
... expressed transcripts. These data suggest face specialization in P. fuscatus is related to shifts in the brain transcriptome associated with genes distinct from those related to general visual learning and social interactions. We used Blast2GO ( Conesa et al., 2005 ) to assign gene ontology (GO) terms...
Includes: Supplementary data
Journal Articles
J Exp Biol (2016) 219 (11): 1705–1716.
Published: 1 June 2016
... temperatures (14°C and 20°C) and used RNA sequencing to examine the transcriptome-wide responses to elevated water temperature in both species. Consistent with having a lower temperature tolerance, longfin smelt exhibited a pronounced cellular stress response, with an upregulation of heat shock proteins, after...
Includes: Supplementary data
Journal Articles
J Exp Biol (2015) 218 (24): 4005–4014.
Published: 1 December 2015
... on endocrine factors to regulate behavioral maturation, but whether neurosecretory systems are central to this process is not known. To explore this, we performed transcriptomic profiling of a neurosecretory region of the brain, the pars intercerebralis (PI) . We first compared PI transcriptional profiles...
Includes: Supplementary data
Journal Articles
J Exp Biol (2015) 218 (12): 1822–1833.
Published: 1 June 2015
...Brent L. Lockwood; Kwasi M. Connor; Andrew Y. Gracey; Jason E. Podrabsky; Jonathon H. Stillman; Lars Tomanek ABSTRACT Transcriptomics is a powerful tool for elucidating the molecular mechanisms that underlie the ability of organisms to survive and thrive in dynamic and changing environments. Here...
Includes: Supplementary data
Journal Articles
J Exp Biol (2015) 218 (12): 1925–1935.
Published: 1 June 2015
...Tyler G. Evans; Jason E. Podrabsky; Jonathon H. Stillman; Lars Tomanek ABSTRACT Transcriptomics has emerged as a powerful approach for exploring physiological responses to the environment. However, like any other experimental approach, transcriptomics has its limitations. Transcriptomics has been...
Journal Articles
J Exp Biol (2015) 218 (5): 767–777.
Published: 1 March 2015
... ( stager2@illinois.edu ) Competing interests The authors declare no competing or financial interests. 2 9 2014 29 12 2014 © 2015. Published by The Company of Biologists Ltd 2015 Summary : Cold-acclimated juncos exhibit elevated thermogenic capacities and transcriptomic...
Includes: Supplementary data
Journal Articles
J Exp Biol (2011) 214 (22): 3808–3821.
Published: 15 November 2011
... transcriptomic and proteomic experiments, physiological experiments and RNA interference to explore the mechanistic basis for this lipid loss. Lipid loss was associated with thousands of gene expression changes in abdominal fat bodies. Many of these genes were also regulated in young bees by nutrition during...
Includes: Supplementary data
Journal Articles
J Exp Biol (2011) 214 (13): 2125–2139.
Published: 1 July 2011
... of the fast muscle transcriptome during fasting and at the point IGF transcripts reached their maximum abundance following feeding. The screening criteria used to build lists of differentially regulated genes were apparently robust because all 14 genes tested were validated by qPCR and were well correlated...
Includes: Supplementary data
Journal Articles
J Exp Biol (2010) 213 (20): 3548–3558.
Published: 15 October 2010
..., the M. trossulus -specific transcriptomic response to heat stress is, in part, characterized by the up-regulation at 32°C of genes involved in proteolysis, an indicator of severe cellular stress ( Dahlhoff, 2004 ; Kültz, 2005 ). Proteolysis is the directed degradation of proteins, and in the context...
Includes: Supplementary data