The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm

Abstract Mangifera casturi Kosterm., a mango plant from Kalimantan Selatan, Indonesia, has limited genetic information, severely limiting the research on its genetic variation and phylogeny. We collected M. casturi’s genomic information using next-generation sequencing, developed microsatellite mark...

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Autores principales:	Deden Derajat Matra, Muh Agust Nur Fathoni, Muhammad Majiidu, Hanif Wicaksono, Agung Sriyono, Gunawan Gunawan, Hilda Susanti, Rismita Sari, Fitmawati Fitmawati, Iskandar Zulkarnaen Siregar, Winarso Drajad Widodo, Roedhy Poerwanto
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/09f1d6bc8f1048868830fe8526df4677
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spelling	oai:doaj.org-article:09f1d6bc8f1048868830fe8526df46772021-12-02T17:13:17ZThe genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm10.1038/s41598-021-99381-y2045-2322https://doaj.org/article/09f1d6bc8f1048868830fe8526df46772021-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-99381-yhttps://doaj.org/toc/2045-2322Abstract Mangifera casturi Kosterm., a mango plant from Kalimantan Selatan, Indonesia, has limited genetic information, severely limiting the research on its genetic variation and phylogeny. We collected M. casturi’s genomic information using next-generation sequencing, developed microsatellite markers and performed Sanger sequencing for DNA barcoding analysis. These markers were used to confirm parental origin and genetic diversity of M. casturi hybrids. The clean reads of the Kasturi accession were assembled de novo, producing 259 872 scaffolds (N50 = 1 445 bp). Fourteen polymorphic microsatellite markers were developed from 11 040 microsatellite motif-containing sequences. In total, 58 alleles were produced with a mean of 4.14 alleles per locus. Microsatellite marker analysis revealed broad genetic variation in M. casturi. Phylogenetic analysis was performed using internal transcribed spacers (ITS), matK, rbcL, and trnH-psbA. The phylogenetic tree of chloroplast markers placed Kasturi, Cuban, Pelipisan, Pinari, and Hambawang in one group, with M. indica as the female ancestor. Meanwhile, the phylogenetic tree of ITS markers indicated several Mangifera species as ancestors of M. casturi. Thus, M. casturi very likely originated from the cross-hybridization of multiple ancestors. Furthermore, crossing the F1 hybrids of M. indica and M. quadrifida with other Mangifera spp. may have generated much genetic variation. The genetic information for M. casturi will be a resource for breeding improvement, and conservation studies.Deden Derajat MatraMuh Agust Nur FathoniMuhammad MajiiduHanif WicaksonoAgung SriyonoGunawan GunawanHilda SusantiRismita SariFitmawati FitmawatiIskandar Zulkarnaen SiregarWinarso Drajad WidodoRoedhy PoerwantoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-10 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Deden Derajat Matra Muh Agust Nur Fathoni Muhammad Majiidu Hanif Wicaksono Agung Sriyono Gunawan Gunawan Hilda Susanti Rismita Sari Fitmawati Fitmawati Iskandar Zulkarnaen Siregar Winarso Drajad Widodo Roedhy Poerwanto The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm
description	Abstract Mangifera casturi Kosterm., a mango plant from Kalimantan Selatan, Indonesia, has limited genetic information, severely limiting the research on its genetic variation and phylogeny. We collected M. casturi’s genomic information using next-generation sequencing, developed microsatellite markers and performed Sanger sequencing for DNA barcoding analysis. These markers were used to confirm parental origin and genetic diversity of M. casturi hybrids. The clean reads of the Kasturi accession were assembled de novo, producing 259 872 scaffolds (N50 = 1 445 bp). Fourteen polymorphic microsatellite markers were developed from 11 040 microsatellite motif-containing sequences. In total, 58 alleles were produced with a mean of 4.14 alleles per locus. Microsatellite marker analysis revealed broad genetic variation in M. casturi. Phylogenetic analysis was performed using internal transcribed spacers (ITS), matK, rbcL, and trnH-psbA. The phylogenetic tree of chloroplast markers placed Kasturi, Cuban, Pelipisan, Pinari, and Hambawang in one group, with M. indica as the female ancestor. Meanwhile, the phylogenetic tree of ITS markers indicated several Mangifera species as ancestors of M. casturi. Thus, M. casturi very likely originated from the cross-hybridization of multiple ancestors. Furthermore, crossing the F1 hybrids of M. indica and M. quadrifida with other Mangifera spp. may have generated much genetic variation. The genetic information for M. casturi will be a resource for breeding improvement, and conservation studies.
format	article
author	Deden Derajat Matra Muh Agust Nur Fathoni Muhammad Majiidu Hanif Wicaksono Agung Sriyono Gunawan Gunawan Hilda Susanti Rismita Sari Fitmawati Fitmawati Iskandar Zulkarnaen Siregar Winarso Drajad Widodo Roedhy Poerwanto
author_facet	Deden Derajat Matra Muh Agust Nur Fathoni Muhammad Majiidu Hanif Wicaksono Agung Sriyono Gunawan Gunawan Hilda Susanti Rismita Sari Fitmawati Fitmawati Iskandar Zulkarnaen Siregar Winarso Drajad Widodo Roedhy Poerwanto
author_sort	Deden Derajat Matra
title	The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm
title_short	The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm
title_full	The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm
title_fullStr	The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm
title_full_unstemmed	The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm
title_sort	genetic variation and relationship among the natural hybrids of mangifera casturi kosterm
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/09f1d6bc8f1048868830fe8526df4677
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The genetic variation and relationship among the natural hybrids of Mangifera casturi Kosterm

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