Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus)
The harvest mouse (Micromys minutus) is a small rodent species with a wide range of vertical distribution in Taiwan, extending from the sea level to 3100 m altitude. This species has recently suffered from habitat loss in high-altitude areas due to orchard cultivation, which may have resulted in mou...
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MDPI AG
2019-03-01
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| Online Access: | http://www.mdpi.com/2076-2615/9/3/92 |
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| author | Tze-Ho Chen Gwo-Chin Ma Wen-Hsiang Lin Dong-Jay Lee Sheng-Hai Wu Ben-Yang Liao Ming Chen Liang-Kong Lin |
| author_facet | Tze-Ho Chen Gwo-Chin Ma Wen-Hsiang Lin Dong-Jay Lee Sheng-Hai Wu Ben-Yang Liao Ming Chen Liang-Kong Lin |
| author_sort | Tze-Ho Chen |
| collection | DOAJ |
| description | The harvest mouse (Micromys minutus) is a small rodent species with a wide range of vertical distribution in Taiwan, extending from the sea level to 3100 m altitude. This species has recently suffered from habitat loss in high-altitude areas due to orchard cultivation, which may have resulted in mouse migration from high to low altitude. To investigate whether there is any physiological mechanism involved in altitude acclimation, rat cDNA microarray was used to compare transcriptomic patterns of the skeletal muscle tissues taken from individuals native to the high-altitude environment and those transferred to the low-altitude captive site. Of the 23,188 genes being analyzed, 47 (33 up-regulated and 14 down-regulated) were found to have differential expression (fold change > 4 or < −4, ANOVA p < 0.05). However, after multiple testing correction with a false discovery rate (FDR), only the result for Tnfrsf12a was found to be statistically significant (fold change = 13, FDR p < 0.05). The result was confirmed by quantitative polymerase chain reaction (q-PCR). The expression of Tnfrsf12a possibly relates to the skeletal muscle biology and thus can be correlated with altitude acclimation. However, finding only one gene transcript with significant alteration suggests that transcriptomic response may not play a major role in high- to low-altitude acclimation in harvest mouse. |
| first_indexed | 2024-04-13T01:14:57Z |
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| id | doaj.art-ec9ddec984354dc5a605cb025a1eb3ec |
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| issn | 2076-2615 |
| language | English |
| last_indexed | 2024-04-13T01:14:57Z |
| publishDate | 2019-03-01 |
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| spelling | doaj.art-ec9ddec984354dc5a605cb025a1eb3ec2022-12-22T03:08:59ZengMDPI AGAnimals2076-26152019-03-01939210.3390/ani9030092ani9030092Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus)Tze-Ho Chen0Gwo-Chin Ma1Wen-Hsiang Lin2Dong-Jay Lee3Sheng-Hai Wu4Ben-Yang Liao5Ming Chen6Liang-Kong Lin7Department of Life Science, Tunghai University, Taichung 40704, TaiwanDepartment of Genomic Medicine and Center for Medical Genetics, Changhua Christian Hospital, Changhua 50046, TaiwanDepartment of Genomic Medicine and Center for Medical Genetics, Changhua Christian Hospital, Changhua 50046, TaiwanDepartment of Genomic Medicine and Center for Medical Genetics, Changhua Christian Hospital, Changhua 50046, TaiwanDepartment of Life Sciences, National Chung Hsing University, Taichung 40227, TaiwanDivision of Biostatistics & Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Zhunan, Miaoli County 35053, TaiwanDepartment of Life Science, Tunghai University, Taichung 40704, TaiwanDepartment of Life Science, Tunghai University, Taichung 40704, TaiwanThe harvest mouse (Micromys minutus) is a small rodent species with a wide range of vertical distribution in Taiwan, extending from the sea level to 3100 m altitude. This species has recently suffered from habitat loss in high-altitude areas due to orchard cultivation, which may have resulted in mouse migration from high to low altitude. To investigate whether there is any physiological mechanism involved in altitude acclimation, rat cDNA microarray was used to compare transcriptomic patterns of the skeletal muscle tissues taken from individuals native to the high-altitude environment and those transferred to the low-altitude captive site. Of the 23,188 genes being analyzed, 47 (33 up-regulated and 14 down-regulated) were found to have differential expression (fold change > 4 or < −4, ANOVA p < 0.05). However, after multiple testing correction with a false discovery rate (FDR), only the result for Tnfrsf12a was found to be statistically significant (fold change = 13, FDR p < 0.05). The result was confirmed by quantitative polymerase chain reaction (q-PCR). The expression of Tnfrsf12a possibly relates to the skeletal muscle biology and thus can be correlated with altitude acclimation. However, finding only one gene transcript with significant alteration suggests that transcriptomic response may not play a major role in high- to low-altitude acclimation in harvest mouse.http://www.mdpi.com/2076-2615/9/3/92gene expressioncDNAacclimationmicroarrayfunctional genomicsbehavior |
| spellingShingle | Tze-Ho Chen Gwo-Chin Ma Wen-Hsiang Lin Dong-Jay Lee Sheng-Hai Wu Ben-Yang Liao Ming Chen Liang-Kong Lin Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus) Animals gene expression cDNA acclimation microarray functional genomics behavior |
| title | Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus) |
| title_full | Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus) |
| title_fullStr | Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus) |
| title_full_unstemmed | Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus) |
| title_short | Genome-Wide Microarray Analysis Suggests Transcriptomic Response May Not Play a Major Role in High- to Low-Altitude Acclimation in Harvest Mouse (Micromys minutus) |
| title_sort | genome wide microarray analysis suggests transcriptomic response may not play a major role in high to low altitude acclimation in harvest mouse micromys minutus |
| topic | gene expression cDNA acclimation microarray functional genomics behavior |
| url | http://www.mdpi.com/2076-2615/9/3/92 |
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