Using SSR markers for hybrid identification and resource management in Vietnamese Acacia breeding programs

Le, Son; Harwood, CE; Griffin, A. R.; H., Son; Ha, Thinh H.; Ratnam, R Wickneswari V; Vaillancourt, René E.

doi:10.1007/s11295-017-1184-2

Cited by 6 publications

(8 citation statements)

References 45 publications

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“…However, in all cases, this error was only by one out of ten individuals in the pool for a combined error rate of 4% in the evaluation population. This error rate is lower than when using seedling morphological characters to distinguish pure species from hybrids (A. mangium x A. auriculiformis) (Gan and Liang 1992;Le et al 2017). In the main experiment, pools with no hybrids should all have been predicted correctly and pools with only one hybrid should not have been under-predicted.…”

Section: Discussionmentioning

confidence: 85%

“…Clones 14 and 1f of A. auriculiformis were both represented by 3 ramets. Clones in these seed orchards had previously been fingerprinted using SSR markers (Le et al 2017), and most were found to be true to their species, but four clones in each orchard were found to be hybrids (either F 1 or backcross). Locations of the 16 hybrid trees remaining at the time of seed collection are shown in Fig.…”

Section: Plant Materialsmentioning

confidence: 99%

“…As part of Vietnam's acacia breeding programs, paired clonal seed orchards of A. mangium and A. auriculiformis were established in 2001 in southern Vietnam (Harwood et al 2015;Le et al 2017) to produce both pure-species and acacia hybrid seed. Putative hybrids have usually been identified by morphology assessment at the nursery stage (Gan and Liang 1992) but this has been shown to result in an over-estimation of hybrid occurrence (Gan and Liang 1992;Le et al 2017). Recently, species-diagnostic markers developed by Le et al (2016) provide a more accurate method to identify hybrids or check the status of putative hybrid individuals (Le et al 2017).…”

Section: Introductionmentioning

confidence: 99%

“…Putative hybrids have usually been identified by morphology assessment at the nursery stage (Gan and Liang 1992) but this has been shown to result in an over-estimation of hybrid occurrence (Gan and Liang 1992;Le et al 2017). Recently, species-diagnostic markers developed by Le et al (2016) provide a more accurate method to identify hybrids or check the status of putative hybrid individuals (Le et al 2017).…”

Section: Introductionmentioning

confidence: 99%

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Patterns of hybrid seed production in adjacent seed orchards of Acacia auriculiformis and A. mangium in Vietnam

Harwood

Nghiem

et al. 2019

Annals of Forest Science

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& Key message Hybrid seed production in adjacent seed orchards of Acacia auriculiformis and Acacia mangium was influenced by (i) flowering times of the two species and (ii) the distances of parent trees from the inter-orchard boundary. Approximately 80% of hybridisation events were found within 60 m from the boundary. & Context Understanding pollen dispersal has important implications for breeding and seed production of pure species and hybrid Acacia. & Aims We examined patterns of hybrid production in adjacent clonal seed orchards of A. auriculiformis and A. mangium in Vietnam. & Methods We assessed the frequency of hybrid offspring using four species-diagnostic SSR markers in seed collected from a total of 72 trees (75 seedlings per tree) at distances ranging from 4 to 144 m from the inter-orchard boundary. The number of hybrid was determined from SSR allele peak sizes in pooled sample (10 seedlings per pool, 540 pools). Calibrations were developed from pools with known proportions of pure-species and hybrid material. & Results Hybrid frequency differed significantly among individual clones (P < 0.001) but not between species (A. mangium = 3.4%, A. auriculiformis = 2.8%). Two late-flowering clones of A. auriculiformis yielded no hybrids. The level of interspecific hybridisation declined significantly (P < 0.001) with increasing distance, and no hybrid seed was produced by trees located more than 116 m from the inter-orchard boundary. & Conclusion Pooling of tissue samples for analysis of species-specific DNA polymorphisms was an efficient, low-cost strategy for detecting hybrid genotypes among the offspring of pure-species parents, and a low rate of associated error was demonstrated. The inferred decline in inter-species pollen flow with increasing distance from the boundary between the two orchards provides guidance for the design of hybridising orchards and isolation requirements to prevent contamination of seed orchards by external pollen sources.

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Section: Discussionmentioning

confidence: 85%

Section: Plant Materialsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Patterns of hybrid seed production in adjacent seed orchards of Acacia auriculiformis and A. mangium in Vietnam

Harwood

Nghiem

et al. 2019

Annals of Forest Science

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“…As such, modern tree breeding programmes are increasingly applying molecular markers to improve the efficiency of production and planting systems (Butcher et al 2000, Ng et al 2005, Grattapaglia & Kirst 2008. Molecular markers are useful for DNA profiling (fingerprinting) of individuals and tracking clones (Kirst et al 2005) and hybrids (Le et al 2016); revealing the genetic structure of breeding populations (Freeman et al 2007, Jones et al 2006, Le et al 2017; identifying paternity and outcrossing rates in open pollinated seed orchards (Griffin et al 2010, Patterson et al 2004, including in Acacia (Le et al 2016, 2017, Muhammad et al 2017; and are expected to form the basis of marker-assisted selection programmes in the near future (Grattapaglia & Kirst 2008, Muranty et al 2014, Muhammad et al 2017.…”

Section: Introductionmentioning

confidence: 99%

Development of microsatellites using next-generation sequencing for Acacia crassicarpa

McKinnon¹,

Larcombe²,

Griffin³

et al. 2018

JTFS

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Acacia crassicarpa is a tropical forestry species that is increasingly being planted in South-East Asia. Using next-generation sequencing, we developed 12 nuclear microsatellite markers for A. crassicarpa and optimised them for assay in three multiplex sets. We tested the 12 loci on 34 A. crassicarpa samples and found that polymorphism ranged from 4 to 8 alleles per locus (average = 5.8). The loci were easy to score in terms of binning and their reproducibility and polymerase chain reaction success rate were high. Given their usability and polymorphism we believe that these 12 loci will be useful for DNA profiling and mating system analysis with direct application in breeding programmes and the conservation of wild populations. Six of the markers also amplified products in related A. mangium and A. auriculiformis, with four being polymorphic in three samples of each species. Therefore, these markers added more broadly to the genomic resources available in Acacia.

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Woody Ornamentals of the Temperate Zone

Laere

Hokanson

Contreras

et al. 2018

Handbook of Plant Breeding

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Using SSR markers for hybrid identification and resource management in Vietnamese Acacia breeding programs

Cited by 6 publications

References 45 publications

Patterns of hybrid seed production in adjacent seed orchards of Acacia auriculiformis and A. mangium in Vietnam

Patterns of hybrid seed production in adjacent seed orchards of Acacia auriculiformis and A. mangium in Vietnam

Development of microsatellites using next-generation sequencing for Acacia crassicarpa

Woody Ornamentals of the Temperate Zone

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