Distinct Molecular Mechanisms Analysis of Obesity Based on Gene Expression Profiles

Joshi, Harish; Vastrad, Basavaraj; Joshi, Nidhi; Vastrad, Chanabasayya

doi:10.21203/rs.3.rs-95029/v1

Cited by 3 publications

(3 citation statements)

References 64 publications

(66 reference statements)

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“…However, previous reports on pigs showed a lack of brown adipocytes (Hou et al, 2017). Joshi et al (Joshi et al, 2020) established the expression profile of adipocytes in obese patients, showing that the expression of numerous obesityrelated genes was by GLIS1 transcription. In the present study, the GLIS1 transcript level was negatively associated with fat deposition (FC = 2 between experimental groups).…”

Section: Validation Of Rna-seq Resultsmentioning

confidence: 97%

New long-non coding RNAs related to fat deposition based on pig model

Piórkowska

Żukowski

Ropka‐Molik

et al. 2022

Annals of Animal Science

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Obesity is a problem in the last decades since the development of certain technologies has forced submission to a faster pace of life, resulting in nutritional changes. Domestic pigs are an excellent animal model in recognition of adiposity-related processes, corresponding to the size of individual organs, the distribution of body fat in the organism, and similar metabolism. The present study applied next-generation sequencing to identify adipose tissue (AT) transcriptomic signals related to increased fat content by identifying differentially expressed genes (DEGs), including long-non coding RNAs in Złotnicka White pigs (n=16). Moreover, besides commonly used functional analysis, we applied the Freiburg RNA tool to predict DE lncRNA targets based on calculation hybridisation energy. And in addition, DE lncRNAs were recognized based on information available in databases. The obtained results show that closely 230 gene expression was found to be dependent on fat content, included 8 lncRNAs. The most interesting was that among identified DE lncRNAs was transcript corresponding to human MALAT1, which was previously considered in the obesity-related context. Moreover, it was identified that in ENSSSCG00000048394, ENSSSCG00000047210, ENSSSCG00000047442 and ENSSSCG00000041577 lncRNAs are contained repeat insertion domains of LncRNAs (RIDLs) considered as important gene expression regulatory elements, and ENSSSCG00000041577 seems to be the host for mir1247(NR_031649.1). The analysis of energy hybridisation between DE lncRNAs and DEGs using the Freiburg IntaRNAv2 tool, including isoforms expressed in AT, showed that ENSSSCG00000047210 lncRNA interacted with the highest number of DEGs and ENSSSCG00000047210 expression was only correlated with positive fat-related DEGs. The functional analysis showed that down-regulated DEGs involved in ECM proteoglycan pathways could be under control of both positive and negative fat-related lncRNAs. The present study, using pigs as an animal model, expands our current knowledge of possible gene expression regulation by lncRNAs in fat tissue and indicates for MALAT1 role in the fat deposition determination, which function is still often questioned or doubtful.

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Section: Validation Of Rna-seq Resultsmentioning

confidence: 97%

New long-non coding RNAs related to fat deposition based on pig model

Piórkowska

Żukowski

Ropka‐Molik

et al. 2022

Annals of Animal Science

View full text Add to dashboard Cite

show abstract

“…However, in pigs previously reports showed the lack of brown adipocytes [47]. Moreover, Joshi et al [48] established by adipocytes' expression profile in the obese patient that expression of numerous obesity-related genes was under GLIS1 transcription factor control. In the present study, GLIS1 transcript level was negatively associated with fat deposition (FC=2 between experimental groups).…”

Section: Validation Of Rna-seq Resultsmentioning

confidence: 98%

Long-non Coding RNAs Related to Fat Deposition in Pigs Included lncRNA Corresponding to Human MALAT1

Piórkowska¹,

Żukowski²,

Ropka‐Molik³

et al. 2021

Preprint

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Obesity is a problem in the last decades since the development of different technologies forced the submission of a faster pace of life, resulting in nutrition style changes. In turn, domestic pigs are an excellent animal model in recognition of adiposity-related processes, corresponding to the size of individual organs, the distribution of body fat in the organism, and similar metabolism. The present study applied the next-generation sequencing method to identify adipose tissue (AT) transcriptomic signals related to increased fat content by identifying differentially expressed genes (DEGs), included long-non coding RNA molecules. The Freiburg RNA tool was applied to recognise predicting hybridisation energy of RNA-RNA interactions. The results indicated several long non-coding RNAs (lncRNAs) whose expression was significantly positively or negatively associated with fat deposition. lncRNAs play an essential role in regulating gene expression by sponging miRNA, binding transcripts, facilitating translation, or coding other smaller RNA regulatory elements. In the pig fat tissue of obese group, increased expression of lncRNAs corresponding to human MALAT1 was observed that previously recognised in the obesity-related context. Moreover, hybridisation energy analyses pinpointed numerous potential interactions between identified differentially expressed lncRNAs, and obesity-related genes and miRNAs expressed in AT.

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“…These interactions were discovered with the hsa-miR-6873–5p [ 28 ] and the hsa-miR-4276 [ 27 ]. Other types of miRNAs, such as the hsa-miR-7111–5p, which binds the HOXC8 gene and up-regulates it, are also found in diseases that could result in co-morbidity in SARS-COV virus scenarios [ 29 ].…”

Section: Discussionmentioning

confidence: 99%