scholarly journals The first genetic linkage map for Fraxinus pennsylvanica and syntenic relationships with four related species

2018 ◽  
Author(s):  
Di Wu ◽  
Jennifer Koch ◽  
Mark Coggeshall ◽  
John Carlson
Keyword(s):  
North America ◽  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
De Novo ◽  
Emerald Ash Borer ◽  
Agrilus Planipennis ◽  
Fraxinus Pennsylvanica ◽  
Green Ash ◽  
Entire Genome

AbstractGreen ash (Fraxinus pennsylvanica) is an outcrossing, diploid (2n=46) hardwood tree species, native to North America. Native ash species in North America are being threatened by the rapid invasion of emerald ash borer (EAB, Agrilus planipennis) from Asia. Green ash, the most widely distributed ash species, is severely affected by EAB infestation, yet few resources for genetic studies and improvement of green ash are available. In this study, a total of 5,712 high quality single nucleotide polymorphisms (SNPs) were discovered using a minimum allele frequency of 1% across the entire genome through genotyping-by-sequencing. We also screened hundreds of genomic- and EST-based microsatellite markers (SSRs) from previous de novo assemblies (Staton et al. 2015; Lane et al. 2016). A first genetic linkage map of green ash was constructed from 91 individuals in a full-sib family, combining 2,719 SNP and 84 SSR segregating markers among the parental maps. The consensus SNP and SSR map contains a total of 1,201 markers in 23 linkage groups spanning 2008.87cM, at an average inter-marker distance of 1.67 cM with a minimum logarithm of odds (LOD) of 6 and maximum recombination fraction of 0.40. Comparisons of the organization the green ash map with the genomes of asterid species coffee and tomato, and genomes of the rosid species poplar and peach, showed areas of conserved gene order, with overall synteny strongest with coffee.

scholarly journals A genetic linkage map of Pleurotus tuoliensis integrated with physical mapping of the de novo sequenced genome and the mating type loci

BMC Genomics ◽  
2018 ◽  
Vol 19 (1) ◽  
Author(s):  
Wei Gao ◽  
Jibin Qu ◽  
Jinxia Zhang ◽  
Anton Sonnenberg ◽  
Qiang Chen ◽  
...  
Keyword(s):  
Linkage Map ◽  
Mating Type ◽  
Physical Mapping ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
De Novo

Genetic structure of green ash (Fraxinus pennsylvanica): implications for the establishment ofex situconservation protocols in light of the invasion of the emerald ash borer

2014 ◽  
Vol 12 (3) ◽  
pp. 286-297 ◽  
Author(s):  
Constance E. Hausman ◽  
Michelle M. Bertke ◽  
John F. Jaeger ◽  
Oscar J. Rocha
Keyword(s):  
Genetic Diversity ◽  
Emerald Ash Borer ◽  
Sampling Strategy ◽  
Design Guidelines ◽  
Agrilus Planipennis ◽  
Fraxinus Pennsylvanica ◽  
Green Ash ◽  
Seed Collection ◽  
Ash Trees ◽  
The Usa

The USA is experiencing a prolific invasion of the wood-boring emerald ash borer,Agrilus planipennis. Native to Asia, this beetle completes its life cycle on ash trees and results in nearly complete mortality of all infested trees. In the present study, we examined the levels of genetic diversity and differentiation among eight populations ofFraxinus pennsylvanica(green ash) using five polymorphic microsatellite loci. Genetic information was used to design guidelines for the establishment of a seed collection sampling strategy to conserve the genetic diversity of ash trees. We found high levels of genetic diversity, as indicated by the allelic richness, both across the populations (16.4 ± 5.18 alleles per locus) and within them (8.03 ± 1.21 alleles per locus). The expected and observed heterozygosity was also high (0.805 ± 0.38 and 0.908 ± 0.04, respectively), and there was moderate genetic differentiation among the populations (FST= 0.083) with members of these eight populations grouped into three distinct clusters. We examined the relationship between the number of individuals sampled and the number of alleles captured in a random sample taken from a population of 10,000 individuals. Only sample sizes of 100 individuals captured most of the alleles (average = 78.74 alleles), but only seven of 50 samples effectively captured all the 82 alleles. Smaller samples did not capture all alleles. A probabilistic model was used to determine an optimal sampling strategy, and it was concluded that a collection of 200 seeds from each of five mother trees would have the highest likelihood of capturing all alleles in a population.

scholarly journals Effects of Cutting Time, Stump Height, and Herbicide Application on Ash (Fraxinus Spp.) Stump Sprouting and Colonization by Emerald Ash Borer (Agrilus planipennis)

2011 ◽  
Vol 28 (2) ◽  
pp. 79-83 ◽  
Author(s):  
Toby R. Petrice ◽  
Robert A. Haack
Keyword(s):  
Emerald Ash Borer ◽  
Late Summer ◽  
Agrilus Planipennis ◽  
Late Spring ◽  
Fraxinus Pennsylvanica ◽  
Green Ash ◽  
White Ash ◽  
Stump Sprouting ◽  
Ash Trees ◽  
Fraxinus Nigra

Abstract Efforts to eradicate or slow the spread of emerald ash borer (EAB) (Agrilus planipennis Fairmaire [Coleoptera: Buprestidae]) include cutting infested and nearby uninfested ash (Fraxinus spp.) trees. However, ash trees readily sprout after they have been cut, providing potential host material for EAB. In 2004–2005, we conducted studies to determine how different cutting times (midspring, late spring, and late summer), different cutting heights (0–5, 10–15, and 20–25 cm above the ground), and triclopyr (44% active ingredient) stump treatment of green ash (Fraxinus pennsylvanica Marsh.) trees affected subsequent stump sprouting and colonization by EAB. We also cut white ash (Fraxinus americana L.) and black ash (Fraxinus nigra Marsh.) trees 20–25 cm above the ground in late spring. Some stumps of each ash species tested sprouted and were colonized by EAB. All green ash stumps treated with triclopyr died and were not colonized by EAB. Stump sprouting was significantly lower for stumps cut in late spring compared with stumps cut in midspring or late summer. Stump sprouting did not vary significantly among cutting heights. None of the green ash stumps cut in midspring or cut 0–5 cm above the ground were colonized by EAB; however, the frequency of stump colonization by EAB did not vary significantly among cutting times or cutting heights.

scholarly journals Emerald Ash Borer Approaches the Borders of the European Union and Kazakhstan and Is Confirmed to Infest European Ash

Forests ◽  
2021 ◽  
Vol 12 (6) ◽  
pp. 691
Author(s):  
Mark G. Volkovitsh ◽  
Andrzej O. Bieńkowski ◽  
Marina J. Orlova-Bienkowskaja
Keyword(s):  
North America ◽  
Plant Protection ◽  
Emerald Ash Borer ◽  
Agrilus Planipennis ◽  
European Russia ◽  
Invasive Pest ◽  
The European Union ◽  
Green Ash ◽  
Ash Trees ◽  
European Ash

Emerald ash borer (EAB), Agrilus planipennis, native to East Asia, is an invasive pest of ash in North America and European Russia. This quarantine species is a threat to ash trees all over Europe. Survey in ten provinces of European Russia in 2019–2020 showed that EAB had spread faster and farther than was previously thought. The new infested sites were first detected in St. Petersburg (110–120 km from the EU border: Estonia, Finland) and Astrakhan Province (50 km from the Kazakhstan border). The current range of EAB in Europe includes Luhansk Province of Ukraine and 18 provinces of Russia: Astrakhan, Belgorod, Bryansk, Kaluga, Kursk, Lipetsk, Moscow, Orel, Ryazan, Smolensk, St. Petersburg, Tambov, Tula, Tver, Vladimir, Volgograd, Voronezh, and Yaroslavl. Within these, only seven quarantine phytosanitary zones in five provinces are declared by the National Plant Protection Organization of Russia. EAB was not found in the regions along the Middle Volga: Mari El, Chuvash and Tatarstan republics, Nizhny Novgorod, Samara and Saratov provinces. The infested sites in St. Petersburg and in the Lower Volga basin are range enclaves separated from the core invasion range by 470 and 370 km, correspondingly. It is possible that new enclaves can appear in the cities of Eastern Europe and Kazakhstan far from the current known range. All previously known infestations in European Russia were in green ash (Fraxinus pennsylvanica), which was introduced from North America, and individual trees of European ash (F. excelsior). A first confirmed case of mass decline of several thousand of EAB-infested European ash trees in Moscow province is provided. Therefore, there is no more doubt that under certain conditions EAB can seriously damage native ash trees in European forests.

scholarly journals An SNP-Based High-Density Genetic Linkage Map for Tetraploid Potato Using Specific Length Amplified Fragment Sequencing (SLAF-Seq) Technology

Agronomy ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 114 ◽  
Author(s):  
Xiaoxia Yu ◽  
Mingfei Zhang ◽  
Zhuo Yu ◽  
Dongsheng Yang ◽  
Jingwei Li ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Large Scale ◽  
High Throughput Sequencing ◽  
Genetic Linkage Map ◽  
De Novo ◽  
Snp Markers ◽  
High Density ◽  
Tetraploid Potato ◽  
Specific Length

Specific length amplified fragment sequencing (SLAF-seq) is a recently developed high-resolution strategy for the discovery of large-scale de novo genotyping of single nucleotide polymorphism (SNP) markers. In the present research, in order to facilitate genome-guided breeding in potato, this strategy was used to develop a large number of SNP markers and construct a high-density genetic linkage map for tetraploid potato. The genomic DNA extracted from 106 F1 individuals derived from a cross between two tetraploid potato varieties YSP-4 × MIN-021 and their parents was used for high-throughput sequencing and SLAF library construction. A total of 556.71 Gb data, which contained 2269.98 million pair-end reads, were obtained after preprocessing. According to bioinformatics analysis, a total of 838,604 SLAF labels were developed, with an average sequencing depth of 26.14-fold for parents and 15.36-fold for offspring of each SLAF, respectively. In total, 113,473 polymorphic SLAFs were obtained, from which 7638 SLAFs were successfully classified into four segregation patterns. After filtering, a total of 7329 SNP markers were detected for genetic map construction. The final integrated linkage map of tetraploid potato included 3001 SNP markers on 12 linkage groups, and covered 1415.88 cM, with an average distance of 0.47 cM between adjacent markers. To our knowledge, the integrated map described herein has the best coverage of the potato genome and the highest marker density for tetraploid potato. This work provides a foundation for further quantitative trait loci (QTL) location, map-based gene cloning of important traits and marker-assisted selection (MAS) of potato.

Mortality of overwintering emerald ash borer (Coleoptera: Buprestidae) associated with an extreme cold event in New York, United States of America

2017 ◽  
Vol 149 (4) ◽  
pp. 482-486 ◽  
Author(s):  
Michael I. Jones ◽  
Juli R. Gould ◽  
Melissa K. Fierke
Keyword(s):  
United States ◽  
New York ◽  
United States Of America ◽  
Emerald Ash Borer ◽  
Agrilus Planipennis ◽  
Fraxinus Pennsylvanica ◽  
Green Ash ◽  
Cold Event ◽  
Extreme Cold ◽  
Overwintering Mortality

AbstractSevere mortality (93%) of overwintering larvae of emerald ash borer, Agrilus planipennis Fairmaire (Coleoptera: Buprestidae), was recorded in March 2016 from green ash, Fraxinus pennsylvanica Marshall (Oleaceae), in Syracuse, New York, United States of America. In contrast, larvae collected from the same area in January exhibited <1% mortality. A strong cold front moved across New York from 13 to 15 February 2016 with temperatures plunging to nearly −40 °C in some areas. In many regions of New York where A. planipennis is established, temperatures dropped well below the reported supercooling point of overwintering larvae. To evaluate whether the extreme cold was linked to extensive mortality of larvae, trees were sampled from four areas that experienced a gradient of minimum temperatures on 14 February 2016. Overwintering mortality varied from ⩽5% to 93% among regions, with lowest survival in the coldest regions. When excised from their galleries, dead larvae were discoloured with brown spots or had black necrotic tissue in the spiracles or foregut. This is the first report of extensive cold-related mortality for this species in North America and highlights the stochastic nature of climatic extremes on invasive species populations.

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