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Applications in Plant Sciences

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https://www.readbyqxmd.com/read/28090414/acknowledgment-of-reviewers
#1
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January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090413/development-of-microsatellite-markers-in-garcinia-paucinervis-clusiaceae-an-endangered-species-of-karst-habitats
#2
Gang Hu, Zhong-Hua Zhang, Ping Yang, Qi-Wei Zhang, Chang-An Yuan
PREMISE OF THE STUDY: Microsatellite markers were developed for Garcinia paucinervis (Clusiaceae), an endangered and endemic tree species of karst habitats, to analyze its genetic diversity and genetic structure. METHODS AND RESULTS: Using shotgun sequencing on an Illumina MiSeq platform, a total of 22 microsatellite primer sets were characterized, of which 17 were identified as polymorphic. For these polymorphic loci, the total number of alleles per locus ranged from two to 12 across 54 individuals from three populations...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090412/development-characterization-and-cross-amplification-of-microsatellite-markers-in-the-understudied-african-genus-anthonotha-fabaceae
#3
Boris B Demenou, Olivier J Hardy
PREMISE OF THE STUDY: Anthonotha macrophylla (Fabaceae) is a common tree species throughout the Guineo-Congolian forest that is sometimes confounded with other congeneric species; it is expected to be an interesting phylogeographical model to infer the history of the African dense forests. We developed 18 microsatellite markers from this species and tested their transferability in 15 congeneric species. METHODS AND RESULTS: A genomic library was obtained using the Illumina platform, and 18 polymorphic microsatellite loci were developed...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090411/development-of-ssr-markers-by-454-sequencing-in-the-endemic-species-gentianella-praecox-subsp-bohemica-gentianaceae
#4
Mária Šurinová, Jiří Brabec, Zuzana Münzbergová
PREMISE OF THE STUDY: Polymorphic microsatellite loci were developed and used to genotype individuals of Gentianella praecox subsp. bohemica (Gentianaceae), a highly protected taxon in Europe, to study the genetic structure of the remaining populations. METHODS AND RESULTS: Thirty-eight primer pairs were successfully amplified; of these, 12 polymorphic microsatellite loci were developed using a 454 sequencing approach and used to genotype 180 individuals of G. praecox subsp...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090410/retrospective-analysis-of-heavy-metal-contamination-in-rhode-island-based-on-old-and-new-herbarium-specimens
#5
Sofia M Rudin, David W Murray, Timothy J S Whitfeld
PREMISE OF THE STUDY: Herbarium specimens may provide a record of past environmental conditions, including heavy metal pollution. To explore this potential, we compared concentrations of copper, lead, and zinc in historical and new collections from four sites in Rhode Island, USA. METHODS: We compared historical specimens (1846 to 1916) to congener specimens collected in 2015 at three former industrial sites in Providence, Rhode Island, and one nonindustrial site on Block Island...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090409/development-and-characterization-of-23-microsatellite-loci-for-rhododendron-ovatum-ericaceae
#6
De-Chen Liu, Yang Zhang, Si-Si Wang, Meng-Yu Liao, Xin-Yu Fan, Yuan-Yuan Li, Rong Wang
PREMISE OF THE STUDY: To estimate the genetic variation of Rhododendron ovatum (Ericaceae), a monoecious evergreen shrub, 23 microsatellite markers were identified from its nuclear genome. METHODS AND RESULTS: We developed 16 polymorphic and seven monomorphic microsatellite primers using the biotin-streptavidin capture method. The 16 polymorphic loci were investigated further using 89 individuals sampled from three populations in China. The number of alleles per locus ranged from four to 30, indicating a high level of polymorphism...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090408/development-of-microsatellite-markers-for-viscum-coloratum-santalaceae-and-their-application-to-wild-populations
#7
Bo-Yun Kim, Han-Sol Park, Soonok Kim, Young-Dong Kim
PREMISE OF THE STUDY: Microsatellite primers were developed for Viscum coloratum (Santalaceae), a semiparasitic medicinal plant that is known for its anticancer properties. Due to excessive human harvesting and loss of suitable habitat of its populations, it has become a potentially threatened species requiring immediate conservation efforts. METHODS AND RESULTS: Based on transcriptome data for V. coloratum, 124 primer pairs were randomly selected for initial validation, of which 19 yielded polymorphic microsatellite loci, with two to six alleles per locus...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090407/development-of-15-polymorphic-microsatellite-markers-for-ficus-virens-moraceae
#8
Rong-Hua Fu, Yun-Xiang Li, Mei Liu, Qiu-Mei Quan
PREMISE OF THE STUDY: Ficus virens (Moraceae) is distributed widely in South and Southeast Asia, Melanesia, and northern Australia, and it is also cultivated outside its original northern range limit in southwestern China. Therefore, the species is well suited to explore the mechanism of range limits of Ficus species. However, little is known about its genetic background. METHODS AND RESULTS: Fifteen polymorphic microsatellite markers were developed using the biotin-streptavidin capture method...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28090406/leaf-disc-grafting-for-the-transmission-of-candidatus-liberibacter-asiaticus-in-citrus-citrus-sinensis-rutaceae-seedlings
#9
Flavia Tabay Zambon, Karen Plant, Ed Etxeberria
PREMISE OF THE STUDY: The search for resistance/tolerance to the devastating citrus huanglongbing disease (syn. HLB or citrus greening) is generating an increasing number of new plants of diverse genetic makeup. As the increasing number of new plants require more space, resources, and time, the need for faster and more efficient HLB screening tests becomes crucial. METHODS AND RESULTS: The leaf-disc grafting system described here consists in replacing a disc of leaf tissue with a similar disc from an infected plant...
January 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843729/development-and-characterization-of-microsatellite-loci-for-lindera-glauca-lauraceae
#10
Biao Xiong, Shubin Dong, Ji Qi, Limei Zhang, Denglong Ha, Yuxi Ju, Zhixiang Zhang
PREMISE OF THE STUDY: Microsatellite primers were developed to investigate population genetic structure in Lindera glauca (Lauraceae). METHODS AND RESULTS: Twenty-five microsatellite primers were developed and optimized for L. glauca using Illumina's Solexa sequencing technology. These novel primers were found to be polymorphic in nine wild L. glauca populations with 81 total alleles confirmed and genotyped via capillary gel electrophoresis. The total number of alleles, observed heterozygosity, and expected heterozygosity for each population ranged from one to four, from 0...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843728/microsatellite-primers-for-the-rare-shrub-acacia-adinophylla-fabaceae
#11
Paul G Nevill, Grant Wardell-Johnson
PREMISE OF THE STUDY: Microsatellite primers were developed for the rare shrub Acacia adinophylla (Fabaceae) to assess genetic diversity and its spatial structuring. METHODS AND RESULTS: Shotgun sequencing on an Illumina MiSeq produced 6,372,575 reads. Using the QDD pipeline, we designed 60 primer pairs, which were screened using PCR. Seventeen loci were developed, of which 12 loci were identified that were polymorphic, amplified reliably, and could be consistently scored...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843727/microsatellite-primers-for-the-rare-sedge-lepidosperma-bungalbin-cyperaceae
#12
Paul G Nevill, Grant Wardell-Johnson
PREMISE OF THE STUDY: Microsatellite markers were developed for the rare sedge Lepidosperma bungalbin (Cyperaceae) to assess genetic variation and its spatial structuring. METHODS AND RESULTS: We conducted shotgun sequencing on an Illumina MiSeq and produced 6,215,872 sequence reads. The QDD pipeline was used to design 60 primer pairs that were screened using PCR. We developed 17 loci, of which 12 loci were identified that were polymorphic, amplified reliably, and could be consistently scored...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843726/development-of-ssr-markers-for-a-tibetan-medicinal-plant-lancea-tibetica-phrymaceae-based-on-rad-sequencing
#13
Zunzhe Tian, Faqi Zhang, Hairui Liu, Qingbo Gao, Shilong Chen
PREMISE OF THE STUDY: Lancea tibetica (Phrymaceae), a Tibetan medicinal plant, is endemic to the Qinghai-Tibet Plateau. The over-exploitation of wild L. tibetica has led to the destruction of many populations. To enhance protection and management, biological research, especially population genetic studies, should be carried out on L. tibetica. Simple sequence repeat (SSR) markers of L. tibetica were developed to analyze population diversity. METHODS AND RESULTS: Four thousand four hundred and forty-one SSR loci were identified for L...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843725/development-of-highly-transferable-microsatellites-for-panax-ginseng-araliaceae-using-whole-genome-data
#14
Peng Jiang, Feng-Xue Shi, Ya-Ling Li, Bao Liu, Lin-Feng Li
PREMISE OF THE STUDY: Highly transferable expressed sequence tag (EST) microsatellites were developed for Panax ginseng (Araliaceae), one of the most celebrated traditional Chinese medicines and an endangered species in East Asia, using whole-genome data. METHODS AND RESULTS: Twenty-one EST microsatellites were characterized from next-generation sequencing and were composed of di- and trinucleotide repeats. Polymorphisms and genetic diversity were evaluated for 45 accessions of three ginseng landraces...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843724/complete-chloroplast-genome-of-a-valuable-medicinal-plant-huperzia-serrata-lycopodiaceae-and-comparison-with-its-congener
#15
Zhi-You Guo, Hong-Rui Zhang, Nawal Shrestha, Xian-Chun Zhang
PREMISE OF THE STUDY: Here we report the complete chloroplast genome of the important medicinal species Huperzia serrata (Lycopodiaceae) and compare it to the chloroplast genome of the congeneric species H. lucidula. METHODS AND RESULTS: The whole chloroplast genome of H. serrata was sequenced using an Illumina platform and assembled with Geneious version R9.0.5. The genome size of H. serrata was 154,176 bp, with 36.3% GC content. The complete chloroplast genome contained 120 unique genes, including 86 coding genes, four rRNA genes, and 30 tRNA genes...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27843723/development-of-single-nucleotide-polymorphism-markers-for-bromus-tectorum-poaceae-from-a-partially-sequenced-transcriptome
#16
Keith R Merrill, Craig E Coleman, Susan E Meyer, Elizabeth A Leger, Katherine A Collins
PREMISE OF THE STUDY: Bromus tectorum (Poaceae) is an annual grass species that is invasive in many areas of the world but most especially in the U.S. Intermountain West. Single-nucleotide polymorphism (SNP) markers were developed for use in investigating the geospatial and ecological diversity of B. tectorum in the Intermountain West to better understand the mechanisms behind its successful invasion. METHODS AND RESULTS: Normalized cDNA libraries from six diverse B...
November 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27785388/transcriptomic-resources-and-marker-validation-for-diploid-and-polyploid-veronica-plantaginaceae-from-new-zealand-and-europe
#17
Eike Mayland-Quellhorst, Heidi M Meudt, Dirk C Albach
PREMISE OF THE STUDY: Polyploidy may generate novel variation, leading to adaptation and species diversification. An excellent natural system to study polyploid evolution in a comparative framework is Veronica (Plantaginaceae), which comprises several parallel, recently evolved polyploid series. METHODS: Over 105 million Illumina paired-end sequence reads were generated from cDNA libraries of leaf tissue from eight individuals representing three European and four New Zealand species...
October 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27785387/characterization-of-polymorphic-microsatellite-markers-in-pinus-armandii-pinaceae-an-endemic-conifer-species-to-china
#18
Wan-Lin Dong, Ruo-Nan Wang, Xiao-Hao Yan, Chuan Niu, Lin-Lin Gong, Zhong-Hu Li
PREMISE OF THE STUDY: Pinus armandii (Pinaceae) is an important conifer tree species in central and southwestern China, and it plays a key role in the local forest ecosystems. To investigate its population genetics and design effective conservation strategies, we characterized 18 polymorphic microsatellite markers for this species. METHODS AND RESULTS: Eighteen novel polymorphic and 16 monomorphic microsatellite loci of P. armandii were isolated using Illumina MiSeq technology...
October 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27785386/polymorphic-microsatellite-markers-in-anthoxanthum-poaceae-and-cross-amplification-in-the-eurasian-complex-of-the-genus
#19
Irene Lema-Suárez, Elvira Sahuquillo, Neus Marí-Mena, Manuel Pimentel
PREMISE OF THE STUDY: Nonplastid microsatellite primers were developed for the first time in the Euro-Siberian complex of Anthoxanthum (Poaceae), a genus of temperate grasses in which reticulate evolution is common. METHODS AND RESULTS: A microsatellite-enriched genomic DNA library allowed the detection of 500 fragments containing a microsatellite motif. Fifteen primer pairs were selected for an extended primer test. A preliminary analysis was conducted on the Eurasian diploid lineages of Anthoxanthum, with special emphasis on three populations of the Mediterranean A...
October 2016: Applications in Plant Sciences
https://www.readbyqxmd.com/read/27785385/isolation-and-characterization-of-microsatellite-markers-in-the-lepisorus-clathratus-complex-polypodiaceae
#20
Cun-Feng Zhao, Myounghai Kwak, Qiao-Ping Xiang
PREMISE OF THE STUDY: Microsatellites were designed and characterized in the Sino-Himalayan fern Lepisorus clathratus complex (Polypodiaceae) to further study the phylogeography and reproductive ecology of this species. METHODS AND RESULTS: From a genomic library obtained by next-generation sequencing, 10 polymorphic and six monomorphic microsatellite loci were developed. In one population of L. clathratus from Taibaishan in central China, the number of alleles observed for these microsatellites ranged from seven to 29, and observed and expected heterozygosity ranged from 0...
October 2016: Applications in Plant Sciences
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