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Genetic diversity and the origin of commercial plantation of Indonesian teak on Java Island

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Abstract

Teak (Tectona grandis) has been widely planted in 70 tropical countries because of the utility and value of its wood. This species was introduced to Indonesia more than 100 years ago, and large plantations—covering 1.2 million ha—can be found on Java Island. However, little information currently exists about the genetic diversity and origin of these trees. We collected plant materials from three regions across Java Island (east, central, and west) and sampled trees spanning three age classes in each region, to clarify the genetic diversity and structure of teak plantations on Java Island. We investigated teak plantation and clonal experiment populations using multiplexed ISSR genotyping by sequencing (MIG-seq) and compared the genetic diversity and structure with the provenance test populations derived from natural teak forest in India, Myanmar, Thailand, and Laos. Analyses using 459 single-nucleotide polymorphism (SNP) loci revealed that native provenances had higher genetic diversity than the Indonesian teak plantations. Moreover, old teak plantations demonstrated lower genetic diversity than young plantations. Further analyses showed that most Indonesian teak plantations are genetically related to Laos, Thailand, and Myanmar provenances. We conclude that there is a weak genetic structure on teak plantations among the regions, which indicates that most plantations were established using plant materials from a specific part of the natural teak distribution. Information regarding the genetic diversity and structure of plantation forests should be taken into account when making future plantation programs.

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References

  • Al-Hawija BN, Wagner V, Hensen I (2014) Genetic comparison between natural and planted populations of Pinus brutia and Cupressus sempervirens in Syria. Turk J Agric For 38:267–280

    Google Scholar 

  • Altona T (1922) Teak and Hindoos. Tectona 15:457–506

    Google Scholar 

  • Aravanopoulos FA (2016) Conservation and monitoring of tree genetic resources in temperate forests. Curr Forestry Rep 2:119–129

    Google Scholar 

  • Bailey JD, Harjanto NA (2005) Teak (Tectona grandis L.) tree growth, stem quality and health in coppiced plantation in Java, Indonesia. New For 30:55–65

    Google Scholar 

  • Behaghel I (1999) The state of teak (Tectona grandis L.F.) plantations in the world. Bois For Trop 262:6–18

    Google Scholar 

  • Binh HT, Ngoc NV, Bon TN, Tagane S, Suyama Y, Yahara T (2018) A new species and two new records of Quercus (Fagaceae) from northern Vietnam. PhytoKeys 92:1–15

    Google Scholar 

  • Broadhurst LM, Fifield G, Vanzella B, Pickup M (2015) An evaluation of genetic structure of seed sources and the maintenance of genetic diversity during establishment of two yellow box (Eucalyptus melliodora) seed-production areas. Aust J Bot 63:455–466

    Google Scholar 

  • Budiadi, Widiyatno, Ishii H (2017) Response of a clonal teak plantation to thinning and pruning in Java, Indonesia. J Trop For Sci 29:44–53

    Google Scholar 

  • Catchen JM, Amores A, Hohenleho P, Cresko W, Postlethwait JH (2011) Stacks: building and genotyping loci de novo from short-read sequences. G3 1:171–182

    CAS  PubMed  PubMed Central  Google Scholar 

  • Catchen JM, Hohenlohe PA, Bassham S, Amores A, Cresko WA (2013) Stacsks: an analysis tool set for population genomics. Mol Ecol 22:3124–3140

    PubMed  PubMed Central  Google Scholar 

  • Davey JW, Hohenlohe PA, Etter PD, Boone JQ, Catchen JM, Blaxter ML (2011) Genome-wide genetic marker discovery and genotyping using next-generation sequencing. Nat Rev Genet 12:599–510

    Google Scholar 

  • Dunker B, Dormontt EE, van Dijk K, Dixon RRM, Jardine DI, Kireta D, Nurtjahjaningsih ILG, Win T-T, Rimbawanto A, Lowe AJ (2019) A set of 156 SNP markers for teak (Tectona grandis Linn.f.). Conserv Genet Resour. https://doi.org/10.1007/s12686-019-01099-7

  • Earl DA, vonHoldt BM (2012) STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conserv Genet Resour 4:359–361

    Google Scholar 

  • Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14:2611–2620

    CAS  PubMed  Google Scholar 

  • Excoffier L, Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour 10:564–567

    PubMed  Google Scholar 

  • Fofana IJ, Ofori D, Poitel M, Verhaegen D (2009) Diversity and genetic structure of teak (Tectona grandis L.f) in its natural range using DNA microsatellite markers. New For 37:175–195

    Google Scholar 

  • Goudet J (2003) FSTAT (ver.2.9.4.) a program to estimate and test population genetics parameter. http://www.unil.ch/izea/softwares/fstat.html. Accessed 20 September 2018

  • Gutierrez-Ortega JS, Jimenez-Cedillo K, Perez-Farrera MA, Vovides AP, Martinez JF, Molina-Freaner F, Imai R, Tsuda Y, Matsuki Y, Suyama Y, Watano Y, Kajita T (2018) Considering evolutionary processes in cycad conservation: identification of evolutionarily significant units within Dioon sonorense (Zamiaceae) in northwestern Mexico. Conserv Genet 19:1069–1081

    CAS  Google Scholar 

  • Hansen OK, Changtragoon S, Ponoy B, Kjaer ED, Minn Y, Finkeldey R, Nielsen KB, Graudal L (2015) Genetic resources of teak (Tectona grandis Linn.f.)-strong genetic structure among natural populations. Tree Genet Genomes 11:802

    Google Scholar 

  • Hansen OK, Changtragoon S, Ponoy B, Lopez J, Richard J, Kjaer ED (2017) Worldwide translocation of teak — origin of landraces and present genetic base. Tree Genet Genomes 13:87

    Google Scholar 

  • Huang GH, Liang KN, Zhou ZZ, Xu JM, Ma HM (2015) Genetic variation and origin of teak (Tectona grandis L.f.) native and introduced provenances. Silvae Genet 64:33–46

    Google Scholar 

  • Iwaizumi MG, Miyata S, Hirao T, Tamura M, Watanabe A (2018) Historical seed use and transfer affect geographic specificity in genetic diversity and structure of old planted Pinus thunbergii populations. For Ecol Manag 408:211–291

    Google Scholar 

  • Iwasaki H, Uchiyama K, Kimura M, Saito Y, Hakamata T, Ide Y (2019) Impact of a tree improvement program on the genetic diversity of sugi (Cryptomeria japonica D Don) plantations. For Ecol Manag 448:466–473

    Google Scholar 

  • Jakobsson M, Rosenberg NA (2007) CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801–1806

    CAS  PubMed  Google Scholar 

  • Kalinowski ST (2005) HP-Rare: a computer program for performing rarefaction on measures of allelic diversity. Mol Ecol Notes 5:187–189

    CAS  Google Scholar 

  • Kaosa-ard A (1989) Teak (Tectona grandis): its natural distribution and related factors. Nat Hist Bull Siam Soc 29:55–74

    Google Scholar 

  • Kertadikara AWS, Prat D (1995) Isozyme variation among teak (Tectona grandis L.f.) provenances. Theor Appl Genet 90:803–810. https://doi.org/10.1007/BF00222015

    Article  CAS  PubMed  Google Scholar 

  • Kollert W, Walotek PJ (2015) Global teak trade in the aftermath of Myanmar’s log export ban. Planted forests and trees working paper FP/49/E. FAO: Rome, Italy. Available at: http://www.fao.org/forestry/plantedforests/67508@170537/en/. Accessed 30 June 2018

  • Kumar S, Setcher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874

    CAS  PubMed  PubMed Central  Google Scholar 

  • Mammadov J, Aggarwal R, Buyyarapu R, Kumpatla S (2012) SNP markers and their impact on plant breeding. Int J Plant Genomics. https://doi.org/10.1155/2012/728398

  • Midgley S, Somaiya RT, Stevens PR, Brown A, Kien ND, Laity R (2015) Planted teak: global production and markets, with reference tp Solomon Islands. ACIAR Technical Report No.85. Australian Centre for International Agricultural Research: Canberra, Australia. https://www.aciar.gov.au/node/12356. Accessed 20 June 2019

  • Monteuuis O, Goh D (2017) Origin and global dissemination of clonal material in planted teak forest. In: Kollert W, Kleine M (eds) The global teak study: analysis, evaluation and future potential of teak resources. International Union of Forest Research Organizations, Vienna, pp 30–36

    Google Scholar 

  • Morin PA, Luikart G, Wayne RK, the SNP Workshop Group (2004) SNPs in ecology, evolution and conservation. Trends Ecol Evol 19:208–216

    Google Scholar 

  • Neto OC, Aguiar AV, Twyford AD, Neaves LE, Pennington RT, Lopes AV (2014) Genetic and ecological outcomes of Inga vea subsp. affinis (Leguminosae) tree plantation in a fragmented tropical landscape. PLoS One. https://doi.org/10.1371/journal.pone.0099903

  • Ohba K (1993) Clonal forestry with sugi (Cryptomeria japonica). In: Ahuja MR, Libby WJ (eds) Clonal Forestry II. Springer-Verlag, Berlin, pp 66–90

    Google Scholar 

  • Palanisamy K, Hedge M, Yi JS (2009) Teak (Tectona grandis Linn.F.): a renowned commercial timber species. J For Sci 25:1–24

    Google Scholar 

  • Pandey D, Brown C (2000) Teak: a global overview. Unasylva 201:3–13

    Google Scholar 

  • Peakall R, Smouse PE (2012) GenAlEx 6.5: genetic analysis in excel. Population genetic software for teaching and research– an update. Bioinformatics 28:2537–2539

    CAS  PubMed  PubMed Central  Google Scholar 

  • Perhutani (2015) Perum Perhutani profile. Perum Perhutani: Jakarta, Indonesia. http://perhutani.co.id/Company%20Profile%20Perhutani.pdf. Accessed 26 July 2019

  • Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959

    CAS  PubMed  PubMed Central  Google Scholar 

  • Richards ZT, Yasuda N, Kikuchi T, Foster T, Mitsuyuki C, Stat M, Suyama Y, Wilson NG (2018) Integrated evidence reveals a new species in the ancient blue coral genus Heliopora (Octocorallia). Sci Rep. https://doi.org/10.1038/s41598-018-3269-z

  • Rogers DL, Montalvo AM (2004) Genetically appropriate choices for plant materials to maintain biological diversity. Report to USDA Forest Service. Genetic Resources Conservation Program, University of California: Davis, CA. https://www.fs.usda.gov/internet/FSE_DOCUMENTS/fsbdev3_039080.pdf. Accessed 20 December 2018

  • Rosenberg NA (2004) DISTRUCT: a program for the graphical display of population structure. Mol Ecol Notes 4:137–138

    Google Scholar 

  • Sadono R (2017) Temporary site index for two- invented teak clones with generative regeneration in the state forestland in East Java, Indonesia. Adv Environ Biol 11:6–12

    Google Scholar 

  • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–442

    CAS  PubMed  Google Scholar 

  • Simatupang MH (2001) Chemical properties of teakwood (Tectona grandis L.f.) as guide for selection of mother trees. In: Hardiyanto EB (ed) Potentials and opportunities in marketing and trade of plantation teak: challenge for the new millennium. Faculty of Forestry Gadjah Mada University, Yogyakarta, pp 255–264

    Google Scholar 

  • Siswamartana, S (1998) Teak forest management in Indonesia. In Kashio M and White K (eds.) Teak for the future. Proceedings of the Second Regional Seminar on Teak: Yangon, Myanmar. http://www.fao.org/3/AC773E/ac773e0d.htm#bm13. Accessed 7 Apr 2019

  • Smiet AC (1990) Forest ecology on Java: conversion and usage in a historical perspective. J Trop For Sci 2:286–302

    Google Scholar 

  • Suhaendi H (1998) Teak improvement in Indonesia. In Kashio M and White K (eds.) Teak for the future. Proceedings of the Second Regional Seminar on Teak. Yangon, Myanmar. http://www.fao.org/3/AC773E/ac773e0c.htm#bm12. Accessed 8 Jan 2019

  • Sumardi S (2011) Fertility variation and effective population size in a teak clonal seed orchard. J For Res 8:66–79

    Google Scholar 

  • Suyama Y, Matsuki Y (2015) MIG-seq: an effective PCR-based method for genome-wide single-nucleotide polymorphism genotyping using the next-generation sequencing platform. Sci Rep 5:16963

    CAS  PubMed  PubMed Central  Google Scholar 

  • Takahashi Y (2017) Genome-wide population genetic analysis identifies evolutionary forces establishing continuous population divergence. Ecol Res 32:461–468

    CAS  Google Scholar 

  • Takahashi Y, Suyama Y, Matsuki Y, Funayama R, Nakayama K, Kawata M (2016) Lack of genetic variation prevents adaptation at the geographic range margin in a damselfly. Mol Ecol 25:4450–4460

    PubMed  Google Scholar 

  • Tamura S, Fukuda T, Pimoneva EA, Petrunenko EA, Krestov PV, Bpndarchuk SN, Chernyagina OA, Suyama Y, Tsunamoto Y, Matsui A, Tsuboi H, Takahashi H, Sato K, Nishikawa Y, Shimamura T, Fujita H, Nakamura K (2018) Molecular and cytological evidences denied the immediate-hybrid hypothesis for Saxifraga yuparensis (sect Bronchiales, Saxifragaceae) endemic to Mt. Yubari in Hokkaido, northern Japan. Phytotaxa 373:53–70

    Google Scholar 

  • Tanaka N, Hamazaki T, Vacharangkura T (1998) Distribution, growth and site requirements of teak. JARQ 32:65–77

    CAS  Google Scholar 

  • Thomas E, Jalonen R, Loo J, Boshier D, Gallo L, Cavers S, Bordács S, Smith P, Bozzano M (2014) Genetic considerations in ecosystem restoration using native tree species. For Ecol Manag 333:66–75

    Google Scholar 

  • Tsumura Y, Kawahara T, Wiekneswari R, Yoshimura H (1996) Molecular phylogeny of dipterocarpaceae in Southeast Asia using RFLP of PCR-amplified chloroplast genes. Theor Appl Genet 93:22–29

    CAS  PubMed  Google Scholar 

  • Uchiyama K, Miyamoto N, Takahashi M, Watanabe A, Tsumura Y (2014) Population genetic structure and the effect of historical human activity on the genetic variability of Cryptomeria japonica core collection, in Japan. Tree Genet Genomes 10:1257–1270

    Google Scholar 

  • Vaishnaw V, Mohammad N, Wali SA, Kumar R, Tripathi SB, Negi MS, Ansari SA (2014) AFLP markers for analysis of genetic diversity and structure of teak (Tectona grandis) in India. Can J For Res 45:297–306

    Google Scholar 

  • Verhaegen D, Fofana IJ, Logossa ZA, Ofori D (2010) What is the genetic origin of teak (Tectona grandis L.) introduced in Africa and in Indonesia? Tree Genet Genomes 6:717–733

    Google Scholar 

  • Wachi N, Matsubayashi KW, Maeto K (2018) Application of next-generation sequencing to the study of non-model insects. Entomol Sci 21:3–11

    Google Scholar 

  • Watanabe A, Widyatmoko A (2004) Discrimination of teak (Tectona grandis) plus trees using selected random amplified polymorphic DNA (RAPD) markers. J Trop For Sci 16:17–24

    Google Scholar 

  • Webb DB, Wood PJ, Smith JP, Henman GS (1984) A guide to species selection for tropical and sub-tropical plantations. Commontwealth Forestry Institute, University of Oxford, Oxford

    Google Scholar 

  • White KJ (1991) Teak: some aspects of research and development. Publication 1991/17. FAO Regional Office for Asia and the Pacific (RAPA): Bangkok, Thailand, p 3

  • Win T-T, Watanabe A, Hirao T, Isoda K, Ishizuka W, Goto S (2015) Genetic diversity of teak population in native regions and plantations in Myanmar detected by microsatellite markers. Bull Univ Tokyo For 132:1–15

    Google Scholar 

  • Wu HX (2018) Benefit and risk of using clones in forestry- a review. Scan J For Res. https://doi.org/10.1080/02827581.2018.1487579

  • Yasunari T (1981) Temporal and spatial variation of monthly rainfall in Java Indonesia. Southeast Asian Stud 18:170–186

    Google Scholar 

  • Yoichi W, Kawamata I, Matsuki Y, Suyama Y, Uehara K, Ito M (2018) Phylogeographic analysis suggests two origins for the riparian azalea Rhododendron indicum (L.) Sweet. Heredity. https://doi.org/10.1038/s41437-018-0064-3

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Acknowledgements

We would like to thank Hideki Mori and Singgih Utomo for assisting with the DNA extraction; Ghani Purnomo, Andy Prakoso, M Jaudin, and Perum Perhutani for helping with sample collection and Fajar Setiawan for mapping the study site. We would also like to thank Gaku Hitsuma for his valuable discussion. The first author was supported by a Japanese Government (Monbukagakusho) scholarship ID Number 173167. This work was partly supported by the JSPS Core-to-Core Program and A. Advanced Research Networks.

Data archiving statement

The SNP data was deposited in Dryad (doi:https://doi.org/10.5061/dryad.r7sqv9s7k).

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Authors and Affiliations

  1. Graduate School of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki, 305-8572, Japan

    Eko Prasetyo

  2. Vocational College, Universitas Gadjah Mada, Sekip Unit II, Yogyakarta, 55281, Indonesia

    Eko Prasetyo

  3. Faculty of Forestry, Universitas Gadjah Mada, Bulaksumur, Yogyakarta, 55281, Indonesia

    Widiyatno, Sapto Indrioko & Mohammad Na’iem

  4. Center for International Partnerships and Research on Climate Change, Forestry and Forest Products Research Institute, Forest Research and Management Organization, 1 Matsunosato, Tsukuba, Ibaraki, 305-8687, Japan

    Tetsuya Matsui

  5. Kawatabi Field Science Center, Graduate School of Agricultural Science, Tohoku University, 232-3 Yomogida, Naruko-onsen, Osaki, Miyagi, 989-67711, Japan

    Ayumi Matsuo & Yoshihisa Suyama

  6. Faculty of Life and Environmental Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki, 305-8572, Japan

    Yoshihiko Tsumura

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  1. Eko Prasetyo
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Prasetyo, E., Widiyatno, Indrioko, S. et al. Genetic diversity and the origin of commercial plantation of Indonesian teak on Java Island. Tree Genetics & Genomes 16, 34 (2020). https://doi.org/10.1007/s11295-020-1427-5

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