Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp.
Banana (Musa spp.) is one of the most widely consumed fruits in the world. Unfortunately, the plants are at risk from many disease problems, which mainly derive from microorganism. It is a little known about the relationship between disease‐inducing microorganisms and plants, particularly at the mol...
| Main Authors: | , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Universitas Gadjah Mada, Yogyakarta
2023-03-01
|
| Series: | Indonesian Journal of Biotechnology |
| Subjects: | |
| Online Access: | https://jurnal.ugm.ac.id/ijbiotech/article/view/49368 |
| _version_ | 1797852212805763072 |
|---|---|
| author | Audie Masola Putra Husna Nugrahapraja Fenny Martha Dwivany |
| author_facet | Audie Masola Putra Husna Nugrahapraja Fenny Martha Dwivany |
| author_sort | Audie Masola Putra |
| collection | DOAJ |
| description | Banana (Musa spp.) is one of the most widely consumed fruits in the world. Unfortunately, the plants are at risk from many disease problems, which mainly derive from microorganism. It is a little known about the relationship between disease‐inducing microorganisms and plants, particularly at the molecular level. This research aimed to characterize long non‐coding RNA (lncRNA) from bananas that may have roles in regulating gene expression related to the disease response mechanism in banana derived from transcriptomic libraries. Furthermore, the detected transcripts were analyzed to identify the endogenous target mimics (eTMs) interaction between lncRNA and microRNA (miRNA) using computational approaches. Data from Cavendish banana (AAA group), Berangan (AAA group), Yunnan Banana (Itinerans), Dajiao (ABB group), and Klutuk (BB group) were used in this research. We found that lncRNA tends to be unsustainable, and most sizes are below 1000 bp (≥ 75%). Based on this result, we investigated the eTMs to determine lncRNA transcripts and miRNA, such as miR397 in Cavendish and miR444 in Klutuk. This transcript would be regulated following exposure to extreme temperatures and disease, indicating the possibility of disease‐specific interaction between bananas and their environment at the molecular level. |
| first_indexed | 2024-04-09T19:30:18Z |
| format | Article |
| id | doaj.art-c1f97643aeb541f78f8d71ef900e2c29 |
| institution | Directory Open Access Journal |
| issn | 0853-8654 2089-2241 |
| language | English |
| last_indexed | 2024-04-09T19:30:18Z |
| publishDate | 2023-03-01 |
| publisher | Universitas Gadjah Mada, Yogyakarta |
| record_format | Article |
| series | Indonesian Journal of Biotechnology |
| spelling | doaj.art-c1f97643aeb541f78f8d71ef900e2c292023-04-05T04:41:11ZengUniversitas Gadjah Mada, YogyakartaIndonesian Journal of Biotechnology0853-86542089-22412023-03-01281566510.22146/ijbiotech.4936833501Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp.Audie Masola Putra0Husna Nugrahapraja1Fenny Martha Dwivany2School of Life Sciences and Technology, Institut Teknologi Bandung, Jalan Ganesha No. 10, Bandung, West Java 40132, IndonesiaSchool of Life Sciences and Technology, Institut Teknologi Bandung, Jalan Ganesha No. 10, Bandung, West Java 40132, Indonesia; Bioscience and Biotechnology Research Center, Institut Teknologi Bandung, Jalan Ganesha No. 10, Bandung, West Java 40132, IndonesiaSchool of Life Sciences and Technology, Institut Teknologi Bandung, Jalan Ganesha No. 10, Bandung, West Java 40132, Indonesia; Bali International Research Center for Banana, Badung, Bali, 80361, Indonesia; Bioscience and Biotechnology Research Center, Institut Teknologi Bandung, Jalan Ganesha No. 10, Bandung, West Java 40132, IndonesiaBanana (Musa spp.) is one of the most widely consumed fruits in the world. Unfortunately, the plants are at risk from many disease problems, which mainly derive from microorganism. It is a little known about the relationship between disease‐inducing microorganisms and plants, particularly at the molecular level. This research aimed to characterize long non‐coding RNA (lncRNA) from bananas that may have roles in regulating gene expression related to the disease response mechanism in banana derived from transcriptomic libraries. Furthermore, the detected transcripts were analyzed to identify the endogenous target mimics (eTMs) interaction between lncRNA and microRNA (miRNA) using computational approaches. Data from Cavendish banana (AAA group), Berangan (AAA group), Yunnan Banana (Itinerans), Dajiao (ABB group), and Klutuk (BB group) were used in this research. We found that lncRNA tends to be unsustainable, and most sizes are below 1000 bp (≥ 75%). Based on this result, we investigated the eTMs to determine lncRNA transcripts and miRNA, such as miR397 in Cavendish and miR444 in Klutuk. This transcript would be regulated following exposure to extreme temperatures and disease, indicating the possibility of disease‐specific interaction between bananas and their environment at the molecular level.https://jurnal.ugm.ac.id/ijbiotech/article/view/49368bananacharacterizationendogenous target mimics (etms)long non‐coding rnatranscriptomic |
| spellingShingle | Audie Masola Putra Husna Nugrahapraja Fenny Martha Dwivany Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. Indonesian Journal of Biotechnology banana characterization endogenous target mimics (etms) long non‐coding rna transcriptomic |
| title | Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. |
| title_full | Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. |
| title_fullStr | Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. |
| title_full_unstemmed | Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. |
| title_short | Revealing disease‐specific endogenous target mimic of microRNA from long non‐coding RNA identification and characterization in Musa spp. |
| title_sort | revealing disease specific endogenous target mimic of microrna from long non coding rna identification and characterization in musa spp |
| topic | banana characterization endogenous target mimics (etms) long non‐coding rna transcriptomic |
| url | https://jurnal.ugm.ac.id/ijbiotech/article/view/49368 |
| work_keys_str_mv | AT audiemasolaputra revealingdiseasespecificendogenoustargetmimicofmicrornafromlongnoncodingrnaidentificationandcharacterizationinmusaspp AT husnanugrahapraja revealingdiseasespecificendogenoustargetmimicofmicrornafromlongnoncodingrnaidentificationandcharacterizationinmusaspp AT fennymarthadwivany revealingdiseasespecificendogenoustargetmimicofmicrornafromlongnoncodingrnaidentificationandcharacterizationinmusaspp |