Acessibilidade / Reportar erro

Genetic diversity and relationship of mango and its wild relatives (Mangifera spp.) based on morphological and molecular markers

Diversidade genética e relação entre a manga e seus parentes silvestres (Mangifera spp.) com base em marcadores morfológicos e moleculares

ABSTRACT

Mango and its wild relatives (Mangifera spp.) are essential for future mango breeding, including preservation programs, because they provide many beneficial genes (agronomic traits), particularly those related to resistance to biotic and abiotic stressors. However, there is a limited understanding of the genetic diversity and relationships of this germplasm. This study aimed to determine the diversity and relationship between endemic mango and its wild relatives (Mangifera spp.) from Borneo Island, Indonesia, using leaf morphology and the internal transcribed spacer (ITS) region. Fifteen samples of Mangifera, covering 12 species, were used. Morphologically, the endemic Mangifera had a low diversity of only 0.22. Based on the ITS sequence, Mangifera endemic to Borneo had a high level of genetic diversity (0.069). In addition, this sequence had a total variable number of 215 bp, of which 110 bp were singleton sites, 89 informative parsimony and 41 indels. Phylogenetic analysis showed that Mangifera was grouped into three clusters for leaf morphological traits and four clades for the ITS region. In this case, the furthest relationship was pointed out by ‘Hampalam’ (M. laurina) and ‘Tambusui’ (M. macrocarpa), as well as by ‘Rawa-Rawa’ (M. similis) and ‘Samputar’ (M. torquenda). In contrast, the closest relationship was shown by ‘Hambawang Damar’ (M. foetida) and ‘Hambawang Puntara’ (M. foetida), including ‘Samputar’ (M. torquenda) and ‘Pauh’ (M. quadrifida). In particular, the common mango (M. indica) was closely related to ‘Asam Buluh’ and ‘Hampalam’ (M. laurina) and distantly related to ‘Pauh’ (M. quadrifida) and ‘Rawa-Rawa’ (M. similis).

KEYWORDS:
Edible fruit; nuclear DNA; phylogenetic relationship

RESUMO

A manga e seus parentes silvestres (Mangifera spp.) são essenciais para o futuro melhoramento da fruta, incluindo programas de preservação, pois fornecem muitos genes benéficos (características agronômicas), particularmente aqueles relacionados à resistência a estressores bióticos e abióticos. No entanto, há uma compreensão limitada da diversidade genética e das relações desse germoplasma. Objetivou-se determinar a diversidade e a relação entre a manga endêmica e seus parentes silvestres (Mangifera spp.) da Ilha de Bornéu, Indonésia, utilizando-se morfologia foliar e a região do espaçador interno transcrito (ITS). Quinze amostras de Mangifera, abrangendo 12 espécies, foram utilizadas. Morfologicamente, a Mangifera endêmica apresentou uma baixa diversidade de apenas 0,22. Com base na sequência ITS, a Mangifera endêmica de Bornéu apresentou um alto nível de diversidade genética (0,069). Além disso, essa sequência tinha um número variável total de 215 pb, dos quais 110 pb eram sítios singleton, 89 informativos para parcimônia e 41 indels. A análise filogenética mostrou que a Mangifera foi aglomerada em três grupos para características morfológicas foliares e quatro clados para a região ITS. Neste caso, a relação mais distante foi apontada por ‘Hampalam’ (M. laurina) e ‘Tambusui’ (M. macrocarpa), bem como por ‘Rawa-Rawa’ (M. similis) e ‘Samputar’ (M. torquenda). Em contraste, a relação mais próxima foi mostrada por ‘Hambawang Damar’ (M. foetida) e ‘Hambawang Puntara’ (M. foetida), incluindo ‘Samputar’ (M. torquenda) e ‘Pauh’ (M. quadrifida). Particularmente, a manga comum (M. indica) estava intimamente relacionada com ‘Asam Buluh’ e ‘Hampalam’ (M. laurina) e distantemente relacionada com ‘Pauh’ (M. quadrifida) e ‘Rawa-Rawa’ (M. similis).

PALAVRAS-CHAVE:
Fruta comestível; DNA nuclear; relação filogenética

INTRODUCTION

Mango (Mangifera indica L.), belonging to the Anacardiaceae family, is one of the most important fruit crops in the world (Azim et al. 2014AZIM, M. K.; KHAN, I. A.; ZHANG, Y. Characterization of mango (Mangifera indica L.) transcriptome and chloroplast genome. Plant Molecular Biology, v. 85, n 1-2, p. 193-208, 2014., Jena & Chand 2021JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021.). According to FAO (2022)FOOD AND AGRICULTURE ORGANIZATION OF THE UNITED NATIONS (FAO). Major tropical fruits: preliminary results 2021. Rome: FAO, 2022., mango continued to be the most significantly traded commodity, in terms of exported quantities, in 2021, with an increase of approximately 3 %, or 75,000 tons from the previous year. Currently, mango is commercially grown in over 100 tropical and subtropical countries, e.g., India, Indonesia, China, Pakistan, Mexico, Brazil and Nigeria (Jena & Chand 2021JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021., WPR 2023WORLD POPULATION REVIEW (WPR). Mango production by country 2023. 2023. Available at: https://worldpopulationreview.com/country-rankings/mango-production-by-country/. Access on: Jan. 03, 2023.
https://worldpopulationreview.com/countr...
).

Indonesia is the second-leading mango producer in the world today, with a production of about 3.6 million tons (WPR 2023WORLD POPULATION REVIEW (WPR). Mango production by country 2023. 2023. Available at: https://worldpopulationreview.com/country-rankings/mango-production-by-country/. Access on: Jan. 03, 2023.
https://worldpopulationreview.com/countr...
). This success is inseparable from the ideal climate and ample farmland to cultivate and harvest the crops (WPR 2023WORLD POPULATION REVIEW (WPR). Mango production by country 2023. 2023. Available at: https://worldpopulationreview.com/country-rankings/mango-production-by-country/. Access on: Jan. 03, 2023.
https://worldpopulationreview.com/countr...
), including the variety of cultivars and the presence of wild relatives of mangoes with their unique characteristics (Anggraheni & Mulyaningsih 2021ANGGRAHENI, Y. G. D.; MULYANINGSIH, E. S. Diversity assessment of mango (Mangifera spp.) plant collection of Cibinong Germplasm Garden based on leaves morphology and RAPD markers. IOP Conference Series: Earth and Environmental Science, v. 715, n. 1, e012045, 2021.). Examples include M. caesia (‘Binjai’), M. foetida (‘Hambawang’), M. odorata (‘Kueni’) and M. casturi (‘Kasturi’) (Ariffin et al. 2015ARIFFIN, Z.; SAH, M. S. M.; IDRIS, S.; HASHIM, N. Genetic diversity of selected Mangifera species revealed by inter simple sequence repeats markers. International Journal of Biodiversity, v. 2015, e458237, 2015.). Some species have been cultivated by local farmers, although not intensively, whereas others are wild in the forest (Ariffin et al. 2015ARIFFIN, Z.; SAH, M. S. M.; IDRIS, S.; HASHIM, N. Genetic diversity of selected Mangifera species revealed by inter simple sequence repeats markers. International Journal of Biodiversity, v. 2015, e458237, 2015.).

The Mangifera genus has approximately 69 species globally, with 30 endemic to Indonesia (Hidayat et al. 2011HIDAYAT, T.; PANCORO, A.; KUSUMAWATY, D.; EIADTHONG, W. Molecular diversification and phylogeny of Mangifera (Anacardiaceae) in Indonesia and Thailand. International Journal on Advanced Science, Engineering and Information Technology, v. 1, n. 1, p. 88-91, 2011., Anggraheni & Mulyaningsih 2021ANGGRAHENI, Y. G. D.; MULYANINGSIH, E. S. Diversity assessment of mango (Mangifera spp.) plant collection of Cibinong Germplasm Garden based on leaves morphology and RAPD markers. IOP Conference Series: Earth and Environmental Science, v. 715, n. 1, e012045, 2021.). According to Fitmawati et al. (2017)FITMAWATI; FAUZIAH, R.; HAYATI, I.; SOFIYANTI, N.; INOUE, E.; MATRA, D. D. Phylogenetic analysis of Mangifera from central region of Sumatra using trnL-F intergenic spacer. Biodiversitas Journal of Biological Diversity, v. 18, n. 3, p. 1035-1040, 2017., the high diversity of Mangifera is essential for future mango breeding programs. This is because wild mango relatives provide many beneficial genes (agronomic traits) for breeding, such as having good resistance to biotic and abiotic stressors (Fitmawati et al. 2017FITMAWATI; FAUZIAH, R.; HAYATI, I.; SOFIYANTI, N.; INOUE, E.; MATRA, D. D. Phylogenetic analysis of Mangifera from central region of Sumatra using trnL-F intergenic spacer. Biodiversitas Journal of Biological Diversity, v. 18, n. 3, p. 1035-1040, 2017.), as reported by Ledesma et al. (2017)LEDESMA, N.; CAMPBELL, R. J.; HASS, M.; CAMPBELL, T. B. Interspecific hybrids between Mangifera indica and related species. Acta Horticulturae, v. 1183, n. 1, p. 83-87, 2017.. However, their economic importance, genetic diversity and phylogenetic relationships are poorly understood (Salma et al. 2010SALMA, I.; KHADIJAH, A.; MASROM, H.; AZUAN, A.; RAZIAH, M. L.; RAHMAN, M. A. Distribution and diversity of Mangifera species on farm in Malaysia. Journal of Tropical Agriculture and Food Science, v. 38, n. 1, p. 89-95, 2010.) due to the complexity of vegetative and reproductive organs (Hidayat et al. 2011HIDAYAT, T.; PANCORO, A.; KUSUMAWATY, D.; EIADTHONG, W. Molecular diversification and phylogeny of Mangifera (Anacardiaceae) in Indonesia and Thailand. International Journal on Advanced Science, Engineering and Information Technology, v. 1, n. 1, p. 88-91, 2011., Ariffin et al. 2015ARIFFIN, Z.; SAH, M. S. M.; IDRIS, S.; HASHIM, N. Genetic diversity of selected Mangifera species revealed by inter simple sequence repeats markers. International Journal of Biodiversity, v. 2015, e458237, 2015.).

The key to success in mango breeding is determining the genetic diversity within and among species (Anggraheni & Mulyaningsih 2021ANGGRAHENI, Y. G. D.; MULYANINGSIH, E. S. Diversity assessment of mango (Mangifera spp.) plant collection of Cibinong Germplasm Garden based on leaves morphology and RAPD markers. IOP Conference Series: Earth and Environmental Science, v. 715, n. 1, e012045, 2021.). For years, morphological traits have been applied in many phylogenetic studies, including mango (Majumder et al. 2013MAJUMDER, D. A. N.; HASSAN, L.; RAHIM, M. A.; KABIR, M. A. Genetic diversity in mango (Mangifera indica L.) through multivariate analysis. Bangladesh Journal of Agricultural Research, v. 38, n. 2, p. 343-353, 2013., Mohamed et al. 2015MOHAMED, Z.; MOHAMED, A.; HASSAN, T.; AHMED, M. Diversity of mango (Mangifera indica L.) cultivars in Shendi area: morphological fruit characterization. International Journal of Research in Agricultural Sciences, v. 2, n. 4, p. 2348-3997, 2015., Toili et al. 2016TOILI, M. E. M.; RIMBERIA, F. K.; NYENDE, A. B.; SILA, D. Morphological diversity of mango germplasm from the upper Athi River region of eastern Kenya: an analysis based on non-fruit descriptors. African Journal of Food, Agriculture, Nutrition and Development, v. 16, n. 2, p. 10913-10935, 2016., Fitmawati et al. 2020FITMAWATI; RAMADHAN, S.; SOFIYANTI, N. Inventory of mango diversity (Mangifera L.) in Bengkulu province. International Journal of Ecophysiology, v. 2, n. 1, p. 34-42, 2020., Zhang et al. 2020ZHANG, C.; XIE, D.; BAI, T.; LUO, X.; ZHANG, F.; NI, Z.; CHEN, Y. Diversity of a large collection of natural populations of mango (Mangifera indica Linn.) revealed by agro-morphological and quality traits. Diversity, v. 12, n. 1, e27, 2020.). However, these traits have certain limitations due to being time consuming and strongly influenced by environmental conditions. Presently, molecular marker utilization is more comprehensive to support and strengthen the morphological data or facilitate the phylogenetic resolution of the germplasm (Fitmawati et al. 2017FITMAWATI; FAUZIAH, R.; HAYATI, I.; SOFIYANTI, N.; INOUE, E.; MATRA, D. D. Phylogenetic analysis of Mangifera from central region of Sumatra using trnL-F intergenic spacer. Biodiversitas Journal of Biological Diversity, v. 18, n. 3, p. 1035-1040, 2017.).

In general, molecular marker applications are fast, neutral and not influenced by environmental factors, unlike morphological traits (Ariffin et al. 2015ARIFFIN, Z.; SAH, M. S. M.; IDRIS, S.; HASHIM, N. Genetic diversity of selected Mangifera species revealed by inter simple sequence repeats markers. International Journal of Biodiversity, v. 2015, e458237, 2015.). During the last few years, several molecular markers have been applied to address the genetic diversity and relationship between mango and wild relatives, e.g., random amplified polymorphic DNA or RAPD (Fitmawati et al. 2010FITMAWATI; HARTANA, A.; PURWOKO, B. S. Diversity of Indonesian mango (Mangifera indica) cultivars based on morphological and RAPD markers. Sabrao Journal of Breeding and Genetics, v. 42, n. 2, p. 84-95, 2010., Anggraheni & Mulyaningsih 2021ANGGRAHENI, Y. G. D.; MULYANINGSIH, E. S. Diversity assessment of mango (Mangifera spp.) plant collection of Cibinong Germplasm Garden based on leaves morphology and RAPD markers. IOP Conference Series: Earth and Environmental Science, v. 715, n. 1, e012045, 2021.), microsatellite or inter simple sequence repeat (ISSR) (Ravishankar et al. 2011RAVISHANKAR, K. V.; MANI, B. H. R.; ANAND, L.; DINESH, M. R. Development of new microsatellite markers from Mango (Mangifera indica) and cross-species amplification. American Journal of Botany, v. 98, n. 4, p. 96-99, 2011., Shamili et al. 2012SHAMILI, M.; FATAHI, R.; HORMAZA, J. I. Characterization and evaluation of genetic diversity of Iranian mango (Mangifera indica L., Anacardiaceae) genotypes using microsatellites. Scientia Horticulturae, v. 148, n. 1, p. 230-234, 2012., Nazish et al. 2017NAZISH, T.; SHABBIR, G.; ALI, A.; SAMI-UL-ALLAH, S.; NAEEM, M.; JAVED, M.; BATOOL, S.; ARSHAD, H.; HUSSAIN, S. B.; ASLAM, K.; SEHER, R.; TAHIR, M.; BABER, M. Molecular diversity of Pakistani mango (Mangifera indica L.) varieties based on microsatellite markers. Genetics and Molecular Research, v. 16, n. 2, egmr16029560, 2017.) and chloroplast DNA (cpDNA) markers (Fitmawati & Hartana 2010FITMAWATI; HARTANA, A. Phylogenetic study of Mangifera laurina and its related species using cpDNA trnL-F spacer markers. Hayati Journal of Biosciences, v. 17, n 1, p. 9-14, 2010., Azim et al. 2014AZIM, M. K.; KHAN, I. A.; ZHANG, Y. Characterization of mango (Mangifera indica L.) transcriptome and chloroplast genome. Plant Molecular Biology, v. 85, n 1-2, p. 193-208, 2014., Fitmawati et al. 2017FITMAWATI; FAUZIAH, R.; HAYATI, I.; SOFIYANTI, N.; INOUE, E.; MATRA, D. D. Phylogenetic analysis of Mangifera from central region of Sumatra using trnL-F intergenic spacer. Biodiversitas Journal of Biological Diversity, v. 18, n. 3, p. 1035-1040, 2017., Rafidah et al. 2019RAFIDAH, N.; FITMAWATI, F.; JULIANTARI, E.; SOFIYANTI, N. The infraspecies variations of Mangifera foetida based on the rbcL gene sequences. Al-Kauniyah Jurnal Biologi, v. 12, n. 1, p. 1-7, 2019.).

This study aimed to determine the genetic diversity and relationship of endemic mango and its wild relatives (Mangifera spp.) from Borneo Island, Indonesia, using leaf morphology and internal transcribed spacer (ITS) region. According to Senavirathna et al. (2020)SENAVIRATHNA, H. M. T. N.; RANAWEERA, L. T.; MUDANNAYAKE, M. M. A. W. P.; NAWANJANA, P. W. I.; WIJESUNDARA, W. M. D. A.; JAYARATHNE, H. S. M.; RATNASURIYA, M. A. P.; WEEBADDE, C. K.; SOORIYAPATHIRANA, S. D. S. S. Assessment of the taxonomic status of the members of genus Artocarpus (Moraceae) in Sri Lanka. Genetic Resources and Crop Evolution, v. 67, n. 5, p. 1163-1179, 2020., the ITS is the nuclear molecular marker that is useful in determining the genetic diversity and phylogeny of germplasm. This is due to the high mutation rate in this region (Lee et al. 2017LEE, S. Y.; MOHAMED, R.; FARIDAH-HANUM, I.; LAMASUDIN, D. U. Utilization of the internal transcribed spacer (ITS) DNA sequence to trace the geographical sources of Aquilaria malaccensis Lam. populations. Plant Genetic Resources: Characterisation and Utilisation, v. 16, n. 2, p. 103-111, 2017.). In addition, ITS provides universality and simplicity in its application and has been successfully applied in some plants, e.g., Acanthopanacis (Zhao et al. 2015ZHAO, S.; CHEN, X.; SONG, J.; PANG, X.; CHEN, S. Internal transcribed spacer 2 barcode: a good tool for identifying Acanthopanacis cortex. Frontiers in Plant Science, v. 6, e840, 2015.), Anoectochilus (Chen & Shiau 2015CHEN, J. R.; SHIAU, Y. J. Application of internal transcribed spacers and maturase K markers for identifying Anoectochilus, Ludisia, and Ludochilus. Biologia Plantarum, v. 59, n 3, p. 485-490, 2015., Thinh et al. 2020THINH, B. B.; CHAC, L. D.; THU, L. T. M. Application of internal transcribed spacer (ITS) sequences for identifying Anoectochilus setaceus Blume in Thanh Hoa, Vietnam. Proceedings on Applied Botany, Genetics and Breeding, v. 181, n. 2, p. 108-116, 2020.), Dioscorea (Purnomo et al. 2017PURNOMO, P.; DARYONO, B. S.; SHIWACHI, H. Phylogenetic relationship of Indonesian water yam (Dioscorea alata L.) cultivars based on DNA marker using ITS-rDNA analysis. Journal of Agricultural Science, v. 9, n. 2, p. 154-161, 2017.), Uncaria (Zhu et al. 2018ZHU, S.; LI, Q.; CHEN, S.; WANG, Y.; ZHOU, L.; ZENG, C.; DONG, J. Phylogenetic analysis of Uncaria species based on internal transcribed spacer (ITS) region and ITS2 secondary structure. Pharmaceutical Biology, v. 56, n. 1, p. 548-558, 2018.) and Zanthoxylum (Zhao et al. 2018ZHAO, L. L.; FENG, S. J.; TIAN, J. Y.; WEI, A. Z.; YANG, T. X. Internal transcribed spacer 2 (ITS2) barcodes: a useful tool for identifying Chinese Zanthoxylum. Applications in Plant Sciences, v. 6, n. 6, e01157, 2018., Suriani et al. 2021SURIANI, C.; PRASETYA, E.; HARSONO, T.; MANURUNG, J.; PRAKASA, H.; HANDAYANI, D.; JANNAH, M.; RACHMAWATI, Y. DNA barcoding of andaliman (Zanthoxylum acanthopodium DC) from North Sumatra province of Indonesia using maturase K gene. Tropical Life Sciences Research, v. 32, n. 2, p. 15-28, 2021.).

MATERIAL AND METHODS

The study was conducted at the University of Lambung Mangkurat, Indonesia, from November 2021 to May 2022. Covering 12 Mangifera species, 15 plant samples were used (Table 1). The samples were collected from eight locations, being six in South Borneo and two in Central Borneo, Indonesia (Figure 1). All leaf samples were taken to the laboratory to be morphologically and molecularly prepared. Morphological characterization was performed using leaf characteristics only (IPGRI 2006INTERNATIONAL PLANT GENETIC RESOURCES INSTITUTE (IPGRI). Descriptors for mango (Mangifera indica L.). Rome: IPGRI, 2006., Hasim et al. 2016HASIM, A.; HERDIYENI, Y.; DOUADY, S. Leaf shape recognition using centroid contour distance. IOP Conference Series: Earth and Environmental Science, v. 31, n. 1, e012002, 2016.).

Table 1
Samples of the Mangifera used in this study, including local names and origins.

Figure 1
Map of sampling location, where 15 samples of Mangifera were collected, including South and Central Kalimantan (Borneo), Indonesia. See Table 1 for detailed information on sample identity.

Molecular characterization begins with DNA extraction using leaf samples and the Geneaid commercial kit (GP100, UK). In this stage, 50 g of leaf samples were crushed and prepared according to the manufacturer’s instructions until pure DNA was obtained. Before amplification, DNA (genome) samples were quantified using spectrophotometric methods. DNA amplification was performed using a PCR machine (MultiGene Optimax, Labnet International Inc., Nort Carolina, USA) with a total volume of 25 µL and the following reaction conditions: initial denaturation (94 ºC for 5 min); denaturation (94 ºC for 30 s); annealing (48 ºC for 30 s); extension (72 ºC for 45 s); and final extension (72 ºC for 7 min) (Mursyidin et al. 2021MURSYIDIN, D. H.; NAZARI, Y. A.; BADRUZSAUFARI, E.; MASMITRA, M. R. D. DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia. Biodiversitas Journal of Biological Diversity, v. 22, n. 4, p. 1593-1599, 2021.). The PCR reaction consisted of 22.0 μL PCR mix [containing DNA polymerase, dNTP and MgCl2 (Bioline, USA), DNA template (2 μL) and primary DNA (1 μL; 10 μM)]. The primers used in the study were for ITS: forward (5’-TCGTAACAAGGTTTCCGTAGGTG-3) and reverse (5’-TCCTCCGCTTATTGATATGC-3)’. The amplification results were visualized using agarose gel electrophoresis (2 %) and a UV transilluminator, and then documented with a digital camera. Sequencing was carried out at 1st Base Ltd. (Malaysia), using the Sanger method, bi-directionally, with an ABI PRISM 377 DNA sequencer (Applied Biosystems, Massachusetts, USA).

The leaf morphological data were analyzed using a multivariate approach in MVSP version 3.1 (Kovach 2007KOVACH, W. MVSP: a multivariate statistical package for Windows, version 3.1. Pentraeth Wales: Kovach Computing Services, 2007.). The Shannon diversity index (H’) was applied to determine the genetic diversity of this germplasm, with high (H′ > 0.60), moderate (0.40 ≤ H′ ≤ 0.60) and low (H′ < 0.40) criteria (Mursyidin & Khairullah 2020MURSYIDIN, D. H.; KHAIRULLAH, I. Genetic evaluation of tidal swamp rice from South Kalimantan, Indonesia based on the agro-morphological markers. Biodiversitas Journal of Biological Diversity, v. 21, n. 10, p. 4795-4803, 2020.). For the molecular analysis, the ITS regions were aligned and analyzed using the MEGA 11 software (Tamura et al. 2021TAMURA, K.; STECHER, G.; KUMAR, S. MEGA11: molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution, v. 38, n. 7, p. 3022-3027, 2021.), to determine the genetic diversity, GC content, variable sites (including informative parsimony and singleton sites) and phylogenetic relationships. In this case, genetic diversity was carried out using the nucleotide diversity index (π) method (Nei & Li 1979NEI, M.; LI, W. H. Mathematical model for studying genetic variation in terms of restriction endonucleases (molecular evolution/mitochondrial DNA/nucleotide diversity). PNAS, v. 76, n. 10, p. 5269-5273, 1979.). Meanwhile, the genetic relationship was reconstructed using the unweighted pair group method with arithmetic average (UPGMA) and maximum likelihood (ML) methods (Lemey et al. 2009LEMEY, P.; SALEMI, M.; VANDAMME, A. M. The phylogenetic handbook: a practical approach to phylogenetic analysis and hypothesis testing. Cambridge: Cambridge University Press, 2009.). The dendrogram and phylogram were then evaluated with bootstrap statistics (1,000 replicates) and confirmed using principal component analysis or PCA (Mursyidin et al. 2022MURSYIDIN, D. H.; KHAIRULLAH, I.; SYAMSUDIN, R. Genetic diversity and relationship of Indonesian swamp rice (Oryza sativa L.) germplasm based on agro-morphological markers. Agriculture and Natural Resources, v. 56, n. 1, p. 95-104, 2022.). Tree diagrams were evaluated visually (Baum 2008BAUM, D. Reading a phylogenetic tree: the meaning of monophyletic groups. Nature Education, v. 1, n. 1, p. 190, 2008.).

RESULTS AND DISCUSSION

Morphologically, endemic Mangifera has a unique leaf shape. In general, this germplasm showed six different leaf shapes: elliptical, lanceolate, linear, oblong-lanceolate, oblong and ovate (Figure 2). In this case, unique leaves were shown by ‘Tambusui’ (M. macrocarpa) with the linear form and ‘Binjai’ (M. caesia) with the oblong-lanceolate form (see samples M2 and M10, respectively, in Figure 2). Based on leaf texture, most Mangifera leaves were coriaceous, except for membranous for ‘Tambusui’ (M. macrocarpa). In addition, five Mangifera samples, including ‘Tambusui’ (M. macrocarpa), ‘Kasturi’ and ‘Kasturi Mawar’ (M. casturi), ‘Samputar’ (M. torquenada) and ‘Pauh’ (M. quadrifida), had leaf pubescence or a glabrous character (Table 2). Other leaf characteristics of this germplasm are provided in Table 2.

Figure 2
Leaf morphology of endemic mango and wild relatives (Mangifera spp.) from Borneo, Indonesia, showing unique difference forms, from oblong-lanceolate (M10), linear (M2) to elliptical (M1). Detailed information on these leaf characteristics is provided in Table 2.

Table 2
Morphological leaf characteristics of Mangifera endemic to Borneo, Indonesia.

According to Kole (2021)KOLE, C. The mango genome. Cham: Springer, 2021., most Mangifera leaves are oblong, as in M. indica, M. laurina and M. foetida. According to Zumajo-Cardona et al. (2019)ZUMAJO-CARDONA, C.; VASCO, A.; AMBROSE, B. A. The evolution of the KANADI gene family and leaf development in lycophytes and ferns. Plants, v. 8, n. 9, e313, 2019., the leaf morphology may correspond to evolution through independent processes, such as branching, planation, webbing and overtopping. Based on these traits, this germplasm has low diversity (Table 3).

Table 3
Shannon diversity index of Mangifera leaf characteristics.

Based on the ITS sequence, Mangifera endemic to Borneo had a genetic diversity of 0.069 (Table 4). According to Jagadeesh et al. (2018)JAGADEESH, D.; KUMAR, M. K. P.; CHANDRAKANTH, R.; DEVAKI, N. S. Molecular diversity of internal transcribed spacer among the monoconidial isolates of Magnaporthe oryzae isolated from rice in Southern Karnataka, India. Journal of Genetic Engineering and Biotechnology, v. 16, n. 2, p. 631-638, 2018., the value of such diversity is relatively high. The genetic diversity of Mangifera was also higher, if compared to other studies with similar markers, such as Soumnya & Nair (2017)SOUMNYA, S. L.; NAIR, B. R. Internal transcribed spacer (ITS) sequence analysis of nuclear ribosomal DNA (nrDNA) in Averrhoa L. International Journal of Current Research, v. 9, n. 2, p. 45353-45359, 2017., who showed a genetic diversity of 0.035 in Averrhoa, and Haque et al. (2009)HAQUE, I.; BANDOPADHYAY, R.; MUKHOPADHYAY, K. Intraspecific variation in Commiphora wightii populations based on internal transcribed spacer (ITS15.8S-ITS2) sequences of rDNA. Diversity, v. 1, n. 2, p. 89-101, 2009., who found a genetic diversity of 0.039 in Commiphora wightii. A similar value of 0.068 was reported by Jagadeesh et al. (2018)JAGADEESH, D.; KUMAR, M. K. P.; CHANDRAKANTH, R.; DEVAKI, N. S. Molecular diversity of internal transcribed spacer among the monoconidial isolates of Magnaporthe oryzae isolated from rice in Southern Karnataka, India. Journal of Genetic Engineering and Biotechnology, v. 16, n. 2, p. 631-638, 2018. for Magnaporthe oryzae. According to Mursyidin et al. (2021)MURSYIDIN, D. H.; NAZARI, Y. A.; BADRUZSAUFARI, E.; MASMITRA, M. R. D. DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia. Biodiversitas Journal of Biological Diversity, v. 22, n. 4, p. 1593-1599, 2021., a high genetic diversity in germplasm is closely related to mutations that occur in the sequences studied.

Table 4
Genetic information of the internal transcribed space (ITS) sequence of Mangifera endemic to Borneo, Indonesia, using Kimura 2-parameter model.

In this case, the ITS sequence of Mangifera had a total variable number of 215 bp, of which 110 bp were singleton sites, 89 were informative parsimony and 41 were indels (Table 4). Figure 3 shows more clearly the mutations that occurred. Based on this figure, substitutions were higher than indels. Furthermore, this sequence had a GC content of 58.64 %, with bias values and ratios of transition/transversion of 1.70 and 1.84, respectively.

Figure 3
Multiple sequence alignment showing some mutational events on the internal transcribed spacer (ITS) region in Mangifera endemic to Borneo, Indonesia.

According to Lee et al. (2017)LEE, S. Y.; MOHAMED, R.; FARIDAH-HANUM, I.; LAMASUDIN, D. U. Utilization of the internal transcribed spacer (ITS) DNA sequence to trace the geographical sources of Aquilaria malaccensis Lam. populations. Plant Genetic Resources: Characterisation and Utilisation, v. 16, n. 2, p. 103-111, 2017., the ITS region shows a high mutation rate. Compared to other studies, this number was higher than the results of Soumnya & Nair (2017)SOUMNYA, S. L.; NAIR, B. R. Internal transcribed spacer (ITS) sequence analysis of nuclear ribosomal DNA (nrDNA) in Averrhoa L. International Journal of Current Research, v. 9, n. 2, p. 45353-45359, 2017. in the ITS Averrhoa region, with as many as 54 variable characteristics and 33 parsimony informative sites. Even in Trichogramma, the ITS region has only 14 variable sites (Viana et al. 2021VIANA, J. B. V.; QUERINO, R. B.; CARVALHO, L. C. B.; LIMA, P. S. C. Sequence analysis of the internal transcribed spacer 2 (ITS2) region of rDNA for identifying Trichogramma species and evaluating genetic diversity. Brazilian Journal of Biology, v. 81, n. 4, p. 928-933, 2021.). According to Drábková et al. (2009)DRÁBKOVÁ, L. Z.; KIRSCHNER, J.; ŠTĚPÁNEK, J.; ZÁVESKÝ, L.; VLČEK, Č. Analysis of nrDNA polymorphism in closely related diploid sexual, tetraploid sexual and polyploid agamospermous species. Plant Systematics and Evolution, v. 278, n. 1-2, p. 67-85, 2009., the high mutation event on ITS is linked to hybridization. In this context, differences in ITS sequences may be met after hybridization and become homogenized after a time, but the latter may not be consistent among descendant lineages (Soltis & Soltis 2009SOLTIS, P. S.; SOLTIS, D. E. The role of hybridization in plant speciation. Annual Review of Plant Biology, v. 60, n. 1, p. 561-588, 2009.).

Related to indels, this gene mutation is essential, since it determines which part of the protein is affected, and not all amino acids are necessary for a proper protein function (Rodriguez-Murillo & Salem 2013RODRIGUEZ-MURILLO, L.; SALEM, R. M. Insertion/deletion polymorphism. In: GELLMAN, M. D.; TURNER, J. R. Encyclopedia of behavioral medicine. New York: Springer, 2013. p. 1076.). According to Ludwig (2016)LUDWIG, M. Z. Noncoding DNA evolution: junk DNA revisited. In: KLIMAN, R. M. Encyclopedia of evolutionary biology. New York: Elsevier, 2016. p. 124-129., several mechanisms generate indels, e.g., complete and partial chromosomal duplication, proliferation of transposable elements, replication errors and unequal crossover. These diverse mutational mechanisms of indel production contribute to single locus and total DNA size variation in the genome. In this case, however, deletions were more frequent than insertions. Furthermore, the genomic prevalence of indels declines with length, and this decline is faster for insertions than deletions (Ludwig 2016LUDWIG, M. Z. Noncoding DNA evolution: junk DNA revisited. In: KLIMAN, R. M. Encyclopedia of evolutionary biology. New York: Elsevier, 2016. p. 124-129.).

Apart from mutation, genetic diversity is necessary for breeding and conservation programs. For plant breeding, genetic diversity is essential to promote the adaptability of populations to environmental changes and to preserve large gene pools for future genetic breeding (Govindaraj et al. 2015GOVINDARAJ, M.; VETRIVENTHAN, M.; SRINIVASAN, M. Importance of genetic diversity assessment in crop plants and its recent advances: an overview of its analytical perspectives. Genetics Research International, v. 2015, e431487, 2015.). In other words, knowledge on the genetic and population diversity of germplasm collections serves as a solid foundation for crop breeding (Dwivedi et al. 2017DWIVEDI, S. L.; SCHEBEN, A.; EDWARDS, D.; SPILLANE, C.; ORTIZ, R. Assessing and exploiting functional diversity in germplasm pools to enhance abiotic stress adaptation and yield in cereals and food legumes. Frontiers in Plant Science, v. 8, n 2, e1461, 2017.). In this case, defining the population diversity within the germplasm is beneficial to avoid false associations while performing association mapping studies (Jena & Chand 2021JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021.). Furthermore, knowledge on the genetic background of parents is a necessary start to developing new varieties endowed with high-yielding features of fruit and more adapted to constantly changing climatic conditions (Govindaraj et al. 2015GOVINDARAJ, M.; VETRIVENTHAN, M.; SRINIVASAN, M. Importance of genetic diversity assessment in crop plants and its recent advances: an overview of its analytical perspectives. Genetics Research International, v. 2015, e431487, 2015.).

For conservation, genetic diversity is critical to long-term survival, sustainable productivity and genetic enhancement of commercially profitable genotypes (Rachmat et al. 2016RACHMAT, H. H.; SUBIAKTO, A.; KAMIYA, K. Genetic diversity and conservation strategy considerations for highly valuable medicinal tree of Taxus sumatrana in Indonesia. Biodiversitas Journal of Biological Diversity, v. 17, n. 2, p. 487-491, 2016.). In this context, the assessment of the level of genetic diversity of a species or population helps to ascertain its current status and threat (Graudal et al. 2014GRAUDAL, L.; ARAVANOPOULOS, F.; BENNADJI, Z.; CHANGTRAGOON, S.; FADY, B.; KJÆR, E. D.; LOO, J.; RAMAMONJISOA, L.; VENDRAMIN, G. G. Global to local genetic diversity indicators of evolutionary potential in tree species within and outside forests. Forest Ecology and Management, v. 333, n. 1, p. 35-51, 2014.). Thus, the information can provide a basis for adopting appropriate scientific management policies and devising effective conservation strategies (Jena & Chand 2021JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021.). In other words, information on this parameter is essential for the effective and efficient management of conservation and the prospective utilization of biodiversity in any crop species (Gavin et al. 2018GAVIN, M. C.; MCCARTER, J.; BERKES, F.; MEAD, A. T. P.; STERLING, E. J.; TANG, R.; TURNER, N. J. Effective biodiversity conservation requires dynamic, pluralistic, partnership-based approaches. Sustainability, v. 10, n 6, e1846, 2018.). In particular, genetic diversity is an essential precursor in studying a species (Wu et al. 2020WU, Q.; ZANG, F.; MA, Y.; ZHENG, Y.; ZANG, D. Analysis of genetic diversity and population structure in endangered Populus wulianensis based on 18 newly developed EST-SSR markers. Global Ecology and Conservation, v. 24, n. 1, e01329, 2020.). This is because the range and magnitude of heterogeneity in the species or population greatly influence its evolutionary potential (Jena & Chand 2021JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021.).

In addition to genetic diversity, determining the phylogenetic relationship among cultivated varieties, including their wild relatives, is also necessary (Skuza et al. 2019SKUZA, L.; SZUĆKO, I.; FILIP, E.; STRZAŁA, T. Genetic diversity and relationship between cultivated, weedy and wild rye species as revealed by chloroplast and mitochondrial DNA non-coding regions analysis. PLoS One, v. 14, n. 2, e0213023, 2019.). In this study, Mangifera was grouped into three clusters for morphological traits (Figure 4) and four clades for ITS (Figure 5). Different groupings were shown by the PCA analysis, where six groups were for morphological (Figure 6A) and seven for molecular (Figure 6B) traits. Following the similarity coefficient (Figure 7A), the furthest relationship is shown by ‘Hampalam’ (M. laurina) and ‘Tambusui’ (M. macrocarpa) at 0.095. The nearest is by popular mango (M. indica) and ‘Asam Buluh’ (M. laurina).

Figure 4
Dendrogram showing the grouping of Mangifera endemic to Borneo, Indonesia, into three clusters.

Figure 5
Phylogram showing the grouping of Mangifera endemic to Borneo, Indonesia, into four clades. The number on the node is a bootstrap value of 1,000 times (above 50).

Figure 6
Principal component analysis (PCA) showing the grouping of Mangifera endemic to Borneo, Indonesia, into six groups for morphological traits (A) and seven for molecular traits (B). In this case, the total variability was 35.024 % for PC1 and 64.066 % for PC2.

Figure 7
Heatmap showing the similarity coefficient (A) and genetic divergence (B), representing the genetic relationship for Mangifera endemic to Borneo, Indonesia.

Based on its coefficient of divergence (Figure 7B), the furthest genetic relationship was shown by ‘Rawa-Rawa’ (M. similis) with ‘Samputar’ (M. torquenda), while the closest relationship was shown by ‘Samputar’ (M. torquenda) with ‘Pauh’ (M. quadrifida). In particular, the popular mango (M. indica) was closely related to M. laurina, i.e., ‘Hampalam’ and ‘Asam Buluh’, at divergence coefficients of 0.010 and 0.022, respectively. However, this mango was distantly related to M. similis (‘Rawa-Rawa’), with a divergence coefficient of 0.084 (Figure 7B).

Following the literature, M. similis has elliptical fruits about 75 mm long and 65 mm wide, sometimes even up to 100 mm in diameter (Atmoko et al. 2016ATMOKO, T.; GUNAWAN, W.; EMILIA, F.; MUKHLISI; PRAYANA, A.; ARIFIN, Z. Budaya masyarakat Dayak Benuaq dan potensi flora hutan Lembonah. Jakarta: Balai Penelitian dan Pengembangan Teknologi Konservasi Sumber Daya Alam, 2016.). When ripe, the taste of this fruit tends to be sweet, with a slight sensation of refreshing sourness (Lim 2012aLIM, T. K. Mangifera similis. In: LIM, T. K. Edible medicinal and non-medicinal plants. Dordrecht: Springer, 2012a. p. 138-139.). Meanwhile, M. laurina has a drupe-like small mango, obliquely oblong, and a small fruit (Lim 2012bLIM, T. K. Mangifera laurina. In: LIM, T. K. Edible medicinal and non-medicinal plants. Dordrecht: Springer, 2012b. p. 124-126.). While the fruit is less delicious because it is very sour, this species has a potential as a genetic resource, because it is resistant to the anthracnose disease caused by Colletotrichum gloeosporioides (Verheij & Coronel 1991VERHEIJ, E. W. M.; CORONEL, R. E. Plant resources of south east Asia: edible fruits and nuts. Bogor: Prosea Foundation, 1991.). In this case, interspecific hybridization between a popular mango (M. indica) and its wild relatives, e.g., M. rubrapetala (‘Raba’), M. casturi (‘Kasturi’) and M. lalijiwa (honey mango), has been reported by Ledesma et al. (2017)LEDESMA, N.; CAMPBELL, R. J.; HASS, M.; CAMPBELL, T. B. Interspecific hybrids between Mangifera indica and related species. Acta Horticulturae, v. 1183, n. 1, p. 83-87, 2017..

In short, wild relatives provide many essential genes that are beneficial in breeding programs, such as resistance to pests and diseases (Migicovsky & Myles 2017MIGICOVSKY, Z.; MYLES, S. Exploiting wild relatives for genomics-assisted breeding of perennial crops. Frontiers in Plant Science, v. 8, n. 4, e460, 2017.). Thus, well-to-type multiplication for the preservation of endemic mango populations is essential to maintain the diversity present in local landraces, to prevent the extinction of elite genotypes available in these areas, and to reduce the risk of loss of desired characteristics (such as fruit quality) due to uncontrolled depression of natural inbreeding (Jena & Chand 2021JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021.).

CONCLUSIONS

Based on leaf morphology, endemic mango (Mangifera spp.) from Borneo, Indonesia, had a low diversity. In contrast, following the internal transcribed spacer (ITS) region, this germplasm had a high level of genetic diversity. The phylogenetic analysis showed that Mangifera was grouped into three clusters for morphological traits and four clades for molecular traits (ITS). In this case, the furthest relationships were between ‘Hampalam’ (M. laurina) and ‘Tambusui’ (M. macrocarpa) and between ‘Rawa-Rawa’ (M. similis) and ‘Samputar’ (M. torquenda). In contrast, the closest relationships were shown for ‘Hambawang Damar’ and ‘Hambawang Puntara’ (M. foetida), and for ‘Samputar’ (M. torquenda) and ‘Pauh’ (M. quadrifida).

REFERENCES

  • ANGGRAHENI, Y. G. D.; MULYANINGSIH, E. S. Diversity assessment of mango (Mangifera spp.) plant collection of Cibinong Germplasm Garden based on leaves morphology and RAPD markers. IOP Conference Series: Earth and Environmental Science, v. 715, n. 1, e012045, 2021.
  • ARIFFIN, Z.; SAH, M. S. M.; IDRIS, S.; HASHIM, N. Genetic diversity of selected Mangifera species revealed by inter simple sequence repeats markers. International Journal of Biodiversity, v. 2015, e458237, 2015.
  • ATMOKO, T.; GUNAWAN, W.; EMILIA, F.; MUKHLISI; PRAYANA, A.; ARIFIN, Z. Budaya masyarakat Dayak Benuaq dan potensi flora hutan Lembonah. Jakarta: Balai Penelitian dan Pengembangan Teknologi Konservasi Sumber Daya Alam, 2016.
  • AZIM, M. K.; KHAN, I. A.; ZHANG, Y. Characterization of mango (Mangifera indica L.) transcriptome and chloroplast genome. Plant Molecular Biology, v. 85, n 1-2, p. 193-208, 2014.
  • BAUM, D. Reading a phylogenetic tree: the meaning of monophyletic groups. Nature Education, v. 1, n. 1, p. 190, 2008.
  • CHEN, J. R.; SHIAU, Y. J. Application of internal transcribed spacers and maturase K markers for identifying Anoectochilus, Ludisia, and Ludochilus. Biologia Plantarum, v. 59, n 3, p. 485-490, 2015.
  • DRÁBKOVÁ, L. Z.; KIRSCHNER, J.; ŠTĚPÁNEK, J.; ZÁVESKÝ, L.; VLČEK, Č. Analysis of nrDNA polymorphism in closely related diploid sexual, tetraploid sexual and polyploid agamospermous species. Plant Systematics and Evolution, v. 278, n. 1-2, p. 67-85, 2009.
  • DWIVEDI, S. L.; SCHEBEN, A.; EDWARDS, D.; SPILLANE, C.; ORTIZ, R. Assessing and exploiting functional diversity in germplasm pools to enhance abiotic stress adaptation and yield in cereals and food legumes. Frontiers in Plant Science, v. 8, n 2, e1461, 2017.
  • FITMAWATI; FAUZIAH, R.; HAYATI, I.; SOFIYANTI, N.; INOUE, E.; MATRA, D. D. Phylogenetic analysis of Mangifera from central region of Sumatra using trnL-F intergenic spacer. Biodiversitas Journal of Biological Diversity, v. 18, n. 3, p. 1035-1040, 2017.
  • FITMAWATI; HARTANA, A. Phylogenetic study of Mangifera laurina and its related species using cpDNA trnL-F spacer markers. Hayati Journal of Biosciences, v. 17, n 1, p. 9-14, 2010.
  • FITMAWATI; HARTANA, A.; PURWOKO, B. S. Diversity of Indonesian mango (Mangifera indica) cultivars based on morphological and RAPD markers. Sabrao Journal of Breeding and Genetics, v. 42, n. 2, p. 84-95, 2010.
  • FITMAWATI; RAMADHAN, S.; SOFIYANTI, N. Inventory of mango diversity (Mangifera L.) in Bengkulu province. International Journal of Ecophysiology, v. 2, n. 1, p. 34-42, 2020.
  • FOOD AND AGRICULTURE ORGANIZATION OF THE UNITED NATIONS (FAO). Major tropical fruits: preliminary results 2021. Rome: FAO, 2022.
  • GAVIN, M. C.; MCCARTER, J.; BERKES, F.; MEAD, A. T. P.; STERLING, E. J.; TANG, R.; TURNER, N. J. Effective biodiversity conservation requires dynamic, pluralistic, partnership-based approaches. Sustainability, v. 10, n 6, e1846, 2018.
  • GOVINDARAJ, M.; VETRIVENTHAN, M.; SRINIVASAN, M. Importance of genetic diversity assessment in crop plants and its recent advances: an overview of its analytical perspectives. Genetics Research International, v. 2015, e431487, 2015.
  • GRAUDAL, L.; ARAVANOPOULOS, F.; BENNADJI, Z.; CHANGTRAGOON, S.; FADY, B.; KJÆR, E. D.; LOO, J.; RAMAMONJISOA, L.; VENDRAMIN, G. G. Global to local genetic diversity indicators of evolutionary potential in tree species within and outside forests. Forest Ecology and Management, v. 333, n. 1, p. 35-51, 2014.
  • HAQUE, I.; BANDOPADHYAY, R.; MUKHOPADHYAY, K. Intraspecific variation in Commiphora wightii populations based on internal transcribed spacer (ITS15.8S-ITS2) sequences of rDNA. Diversity, v. 1, n. 2, p. 89-101, 2009.
  • HASIM, A.; HERDIYENI, Y.; DOUADY, S. Leaf shape recognition using centroid contour distance. IOP Conference Series: Earth and Environmental Science, v. 31, n. 1, e012002, 2016.
  • HIDAYAT, T.; PANCORO, A.; KUSUMAWATY, D.; EIADTHONG, W. Molecular diversification and phylogeny of Mangifera (Anacardiaceae) in Indonesia and Thailand. International Journal on Advanced Science, Engineering and Information Technology, v. 1, n. 1, p. 88-91, 2011.
  • INTERNATIONAL PLANT GENETIC RESOURCES INSTITUTE (IPGRI). Descriptors for mango (Mangifera indica L.) Rome: IPGRI, 2006.
  • JAGADEESH, D.; KUMAR, M. K. P.; CHANDRAKANTH, R.; DEVAKI, N. S. Molecular diversity of internal transcribed spacer among the monoconidial isolates of Magnaporthe oryzae isolated from rice in Southern Karnataka, India. Journal of Genetic Engineering and Biotechnology, v. 16, n. 2, p. 631-638, 2018.
  • JENA, R. C.; CHAND, P. K. Multiple DNA markerassisted diversity analysis of Indian mango (Mangifera indica L.) populations. Scientific Reports, v. 11, e10345, 2021.
  • KOLE, C. The mango genome Cham: Springer, 2021.
  • KOVACH, W. MVSP: a multivariate statistical package for Windows, version 3.1. Pentraeth Wales: Kovach Computing Services, 2007.
  • LEDESMA, N.; CAMPBELL, R. J.; HASS, M.; CAMPBELL, T. B. Interspecific hybrids between Mangifera indica and related species. Acta Horticulturae, v. 1183, n. 1, p. 83-87, 2017.
  • LEE, S. Y.; MOHAMED, R.; FARIDAH-HANUM, I.; LAMASUDIN, D. U. Utilization of the internal transcribed spacer (ITS) DNA sequence to trace the geographical sources of Aquilaria malaccensis Lam. populations. Plant Genetic Resources: Characterisation and Utilisation, v. 16, n. 2, p. 103-111, 2017.
  • LEMEY, P.; SALEMI, M.; VANDAMME, A. M. The phylogenetic handbook: a practical approach to phylogenetic analysis and hypothesis testing. Cambridge: Cambridge University Press, 2009.
  • LIM, T. K. Mangifera similis In: LIM, T. K. Edible medicinal and non-medicinal plants Dordrecht: Springer, 2012a. p. 138-139.
  • LIM, T. K. Mangifera laurina In: LIM, T. K. Edible medicinal and non-medicinal plants Dordrecht: Springer, 2012b. p. 124-126.
  • LUDWIG, M. Z. Noncoding DNA evolution: junk DNA revisited. In: KLIMAN, R. M. Encyclopedia of evolutionary biology New York: Elsevier, 2016. p. 124-129.
  • MAJUMDER, D. A. N.; HASSAN, L.; RAHIM, M. A.; KABIR, M. A. Genetic diversity in mango (Mangifera indica L.) through multivariate analysis. Bangladesh Journal of Agricultural Research, v. 38, n. 2, p. 343-353, 2013.
  • MIGICOVSKY, Z.; MYLES, S. Exploiting wild relatives for genomics-assisted breeding of perennial crops. Frontiers in Plant Science, v. 8, n. 4, e460, 2017.
  • MOHAMED, Z.; MOHAMED, A.; HASSAN, T.; AHMED, M. Diversity of mango (Mangifera indica L.) cultivars in Shendi area: morphological fruit characterization. International Journal of Research in Agricultural Sciences, v. 2, n. 4, p. 2348-3997, 2015.
  • MURSYIDIN, D. H.; KHAIRULLAH, I. Genetic evaluation of tidal swamp rice from South Kalimantan, Indonesia based on the agro-morphological markers. Biodiversitas Journal of Biological Diversity, v. 21, n. 10, p. 4795-4803, 2020.
  • MURSYIDIN, D. H.; KHAIRULLAH, I.; SYAMSUDIN, R. Genetic diversity and relationship of Indonesian swamp rice (Oryza sativa L.) germplasm based on agro-morphological markers. Agriculture and Natural Resources, v. 56, n. 1, p. 95-104, 2022.
  • MURSYIDIN, D. H.; NAZARI, Y. A.; BADRUZSAUFARI, E.; MASMITRA, M. R. D. DNA barcoding of the tidal swamp rice (Oryza sativa) landraces from South Kalimantan, Indonesia. Biodiversitas Journal of Biological Diversity, v. 22, n. 4, p. 1593-1599, 2021.
  • NAZISH, T.; SHABBIR, G.; ALI, A.; SAMI-UL-ALLAH, S.; NAEEM, M.; JAVED, M.; BATOOL, S.; ARSHAD, H.; HUSSAIN, S. B.; ASLAM, K.; SEHER, R.; TAHIR, M.; BABER, M. Molecular diversity of Pakistani mango (Mangifera indica L.) varieties based on microsatellite markers. Genetics and Molecular Research, v. 16, n. 2, egmr16029560, 2017.
  • NEI, M.; LI, W. H. Mathematical model for studying genetic variation in terms of restriction endonucleases (molecular evolution/mitochondrial DNA/nucleotide diversity). PNAS, v. 76, n. 10, p. 5269-5273, 1979.
  • PURNOMO, P.; DARYONO, B. S.; SHIWACHI, H. Phylogenetic relationship of Indonesian water yam (Dioscorea alata L.) cultivars based on DNA marker using ITS-rDNA analysis. Journal of Agricultural Science, v. 9, n. 2, p. 154-161, 2017.
  • RACHMAT, H. H.; SUBIAKTO, A.; KAMIYA, K. Genetic diversity and conservation strategy considerations for highly valuable medicinal tree of Taxus sumatrana in Indonesia. Biodiversitas Journal of Biological Diversity, v. 17, n. 2, p. 487-491, 2016.
  • RAFIDAH, N.; FITMAWATI, F.; JULIANTARI, E.; SOFIYANTI, N. The infraspecies variations of Mangifera foetida based on the rbcL gene sequences. Al-Kauniyah Jurnal Biologi, v. 12, n. 1, p. 1-7, 2019.
  • RAVISHANKAR, K. V.; MANI, B. H. R.; ANAND, L.; DINESH, M. R. Development of new microsatellite markers from Mango (Mangifera indica) and cross-species amplification. American Journal of Botany, v. 98, n. 4, p. 96-99, 2011.
  • RODRIGUEZ-MURILLO, L.; SALEM, R. M. Insertion/deletion polymorphism. In: GELLMAN, M. D.; TURNER, J. R. Encyclopedia of behavioral medicine New York: Springer, 2013. p. 1076.
  • SALMA, I.; KHADIJAH, A.; MASROM, H.; AZUAN, A.; RAZIAH, M. L.; RAHMAN, M. A. Distribution and diversity of Mangifera species on farm in Malaysia. Journal of Tropical Agriculture and Food Science, v. 38, n. 1, p. 89-95, 2010.
  • SENAVIRATHNA, H. M. T. N.; RANAWEERA, L. T.; MUDANNAYAKE, M. M. A. W. P.; NAWANJANA, P. W. I.; WIJESUNDARA, W. M. D. A.; JAYARATHNE, H. S. M.; RATNASURIYA, M. A. P.; WEEBADDE, C. K.; SOORIYAPATHIRANA, S. D. S. S. Assessment of the taxonomic status of the members of genus Artocarpus (Moraceae) in Sri Lanka. Genetic Resources and Crop Evolution, v. 67, n. 5, p. 1163-1179, 2020.
  • SHAMILI, M.; FATAHI, R.; HORMAZA, J. I. Characterization and evaluation of genetic diversity of Iranian mango (Mangifera indica L., Anacardiaceae) genotypes using microsatellites. Scientia Horticulturae, v. 148, n. 1, p. 230-234, 2012.
  • SKUZA, L.; SZUĆKO, I.; FILIP, E.; STRZAŁA, T. Genetic diversity and relationship between cultivated, weedy and wild rye species as revealed by chloroplast and mitochondrial DNA non-coding regions analysis. PLoS One, v. 14, n. 2, e0213023, 2019.
  • SOLTIS, P. S.; SOLTIS, D. E. The role of hybridization in plant speciation. Annual Review of Plant Biology, v. 60, n. 1, p. 561-588, 2009.
  • SOUMNYA, S. L.; NAIR, B. R. Internal transcribed spacer (ITS) sequence analysis of nuclear ribosomal DNA (nrDNA) in Averrhoa L. International Journal of Current Research, v. 9, n. 2, p. 45353-45359, 2017.
  • SURIANI, C.; PRASETYA, E.; HARSONO, T.; MANURUNG, J.; PRAKASA, H.; HANDAYANI, D.; JANNAH, M.; RACHMAWATI, Y. DNA barcoding of andaliman (Zanthoxylum acanthopodium DC) from North Sumatra province of Indonesia using maturase K gene. Tropical Life Sciences Research, v. 32, n. 2, p. 15-28, 2021.
  • TAMURA, K.; STECHER, G.; KUMAR, S. MEGA11: molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution, v. 38, n. 7, p. 3022-3027, 2021.
  • THINH, B. B.; CHAC, L. D.; THU, L. T. M. Application of internal transcribed spacer (ITS) sequences for identifying Anoectochilus setaceus Blume in Thanh Hoa, Vietnam. Proceedings on Applied Botany, Genetics and Breeding, v. 181, n. 2, p. 108-116, 2020.
  • TOILI, M. E. M.; RIMBERIA, F. K.; NYENDE, A. B.; SILA, D. Morphological diversity of mango germplasm from the upper Athi River region of eastern Kenya: an analysis based on non-fruit descriptors. African Journal of Food, Agriculture, Nutrition and Development, v. 16, n. 2, p. 10913-10935, 2016.
  • VERHEIJ, E. W. M.; CORONEL, R. E. Plant resources of south east Asia: edible fruits and nuts. Bogor: Prosea Foundation, 1991.
  • VIANA, J. B. V.; QUERINO, R. B.; CARVALHO, L. C. B.; LIMA, P. S. C. Sequence analysis of the internal transcribed spacer 2 (ITS2) region of rDNA for identifying Trichogramma species and evaluating genetic diversity. Brazilian Journal of Biology, v. 81, n. 4, p. 928-933, 2021.
  • WORLD POPULATION REVIEW (WPR). Mango production by country 2023 2023. Available at: https://worldpopulationreview.com/country-rankings/mango-production-by-country/ Access on: Jan. 03, 2023.
    » https://worldpopulationreview.com/country-rankings/mango-production-by-country/
  • WU, Q.; ZANG, F.; MA, Y.; ZHENG, Y.; ZANG, D. Analysis of genetic diversity and population structure in endangered Populus wulianensis based on 18 newly developed EST-SSR markers. Global Ecology and Conservation, v. 24, n. 1, e01329, 2020.
  • ZHANG, C.; XIE, D.; BAI, T.; LUO, X.; ZHANG, F.; NI, Z.; CHEN, Y. Diversity of a large collection of natural populations of mango (Mangifera indica Linn.) revealed by agro-morphological and quality traits. Diversity, v. 12, n. 1, e27, 2020.
  • ZHAO, L. L.; FENG, S. J.; TIAN, J. Y.; WEI, A. Z.; YANG, T. X. Internal transcribed spacer 2 (ITS2) barcodes: a useful tool for identifying Chinese Zanthoxylum Applications in Plant Sciences, v. 6, n. 6, e01157, 2018.
  • ZHAO, S.; CHEN, X.; SONG, J.; PANG, X.; CHEN, S. Internal transcribed spacer 2 barcode: a good tool for identifying Acanthopanacis cortex Frontiers in Plant Science, v. 6, e840, 2015.
  • ZHU, S.; LI, Q.; CHEN, S.; WANG, Y.; ZHOU, L.; ZENG, C.; DONG, J. Phylogenetic analysis of Uncaria species based on internal transcribed spacer (ITS) region and ITS2 secondary structure. Pharmaceutical Biology, v. 56, n. 1, p. 548-558, 2018.
  • ZUMAJO-CARDONA, C.; VASCO, A.; AMBROSE, B. A. The evolution of the KANADI gene family and leaf development in lycophytes and ferns. Plants, v. 8, n. 9, e313, 2019.

Publication Dates

  • Publication in this collection
    04 Aug 2023
  • Date of issue
    2023

History

  • Received
    19 Feb 2023
  • Accepted
    25 Apr 2023
  • Published
    16 June 2023
Escola de Agronomia/UFG Caixa Postal 131 - Campus II, 74001-970 Goiânia-GO / Brasil, 55 62 3521-1552 - Goiânia - GO - Brazil
E-mail: revistapat.agro@ufg.br