DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia

Abstract. Mursyidin DH, Nazari YA, Badruzsaufari, Masmitra MRD. 2021. DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia. Biodiversitas 22: 1593-1599. The tidal swamp rice (Oryza sativa L.) landraces of the South Kalimantan, Indonesia, has been known for...

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Autores principales:	Dindin Hidayatul Mursyidin, Yudhi Ahmad Nazari, Badruzsaufari BADRUZSAUFARI, Muhammad Ridho Dinta Masmitra
Formato:	article
Lenguaje:	EN
Publicado:	MBI & UNS Solo 2021
Materias:	rice, genetic diversity, tidal swamp area, breeding program, dna barcoding. Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/e3449bcab8754fb6a869fb41b212420f
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spelling	oai:doaj.org-article:e3449bcab8754fb6a869fb41b212420f2021-11-22T00:57:38ZDNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia1412-033X2085-472210.13057/biodiv/d220401https://doaj.org/article/e3449bcab8754fb6a869fb41b212420f2021-03-01T00:00:00Zhttps://smujo.id/biodiv/article/view/7780https://doaj.org/toc/1412-033Xhttps://doaj.org/toc/2085-4722Abstract. Mursyidin DH, Nazari YA, Badruzsaufari, Masmitra MRD. 2021. DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia. Biodiversitas 22: 1593-1599. The tidal swamp rice (Oryza sativa L.) landraces of the South Kalimantan, Indonesia, has been known for hundred years ago with a better adaptation to the local conditions, such as acidity, salinity, and metals contamination. However, the genetic insight of these landraces has not fully understood. Here, the rbcL region of tidal swamp rice from this region was successfully sequenced, aligned, analyzed, and deposited into the GenBank with accession numbers of MT818188–MT818201. The multiple alignments of these sequences showing a barcoding motif with eight mutation or polymorphic sites with both substitutions (transition-transversion) and indels (insertion-deletion). Based on this marker, the tidal swamp rice has a low genetic diversity, only 0.086. However, the UPGMA and maximum likelihood (ML) analyses revealed that this germplasm was grouped into five and twoclusters or clades, respectively. In this case, Bayar Putih is closely related to Siam Panangah and farthest from Lemo. This information might help to develop conservation and breeding programs of the tidal swamp rice landraces in the future.Dindin Hidayatul MursyidinYudhi Ahmad NazariBadruzsaufari BADRUZSAUFARIMuhammad Ridho Dinta MasmitraMBI & UNS Soloarticlerice, genetic diversity, tidal swamp area, breeding program, dna barcoding.Biology (General)QH301-705.5ENBiodiversitas, Vol 22, Iss 4 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	rice, genetic diversity, tidal swamp area, breeding program, dna barcoding. Biology (General) QH301-705.5
spellingShingle	rice, genetic diversity, tidal swamp area, breeding program, dna barcoding. Biology (General) QH301-705.5 Dindin Hidayatul Mursyidin Yudhi Ahmad Nazari Badruzsaufari BADRUZSAUFARI Muhammad Ridho Dinta Masmitra DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia
description	Abstract. Mursyidin DH, Nazari YA, Badruzsaufari, Masmitra MRD. 2021. DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia. Biodiversitas 22: 1593-1599. The tidal swamp rice (Oryza sativa L.) landraces of the South Kalimantan, Indonesia, has been known for hundred years ago with a better adaptation to the local conditions, such as acidity, salinity, and metals contamination. However, the genetic insight of these landraces has not fully understood. Here, the rbcL region of tidal swamp rice from this region was successfully sequenced, aligned, analyzed, and deposited into the GenBank with accession numbers of MT818188–MT818201. The multiple alignments of these sequences showing a barcoding motif with eight mutation or polymorphic sites with both substitutions (transition-transversion) and indels (insertion-deletion). Based on this marker, the tidal swamp rice has a low genetic diversity, only 0.086. However, the UPGMA and maximum likelihood (ML) analyses revealed that this germplasm was grouped into five and twoclusters or clades, respectively. In this case, Bayar Putih is closely related to Siam Panangah and farthest from Lemo. This information might help to develop conservation and breeding programs of the tidal swamp rice landraces in the future.
format	article
author	Dindin Hidayatul Mursyidin Yudhi Ahmad Nazari Badruzsaufari BADRUZSAUFARI Muhammad Ridho Dinta Masmitra
author_facet	Dindin Hidayatul Mursyidin Yudhi Ahmad Nazari Badruzsaufari BADRUZSAUFARI Muhammad Ridho Dinta Masmitra
author_sort	Dindin Hidayatul Mursyidin
title	DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia
title_short	DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia
title_full	DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia
title_fullStr	DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia
title_full_unstemmed	DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia
title_sort	dna barcoding of the tidal swamp rice (oryza sativa) landraces from south kalimantan, indonesia
publisher	MBI & UNS Solo
publishDate	2021
url	https://doaj.org/article/e3449bcab8754fb6a869fb41b212420f
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DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia

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