589 results match your criteria Applications In Plant Sciences[Journal]


Toward a large-scale and deep phenological stage annotation of herbarium specimens: Case studies from temperate, tropical, and equatorial floras.

Appl Plant Sci 2019 Mar 20;7(3):e01233. Epub 2019 Mar 20.

Institut national de recherche en informatique et en automatique (INRIA) Sophia-Antipolis, ZENITH team, Laboratory of Informatics Robotics and Microelectronics-Joint Research Unit, 34095 Montpellier CEDEX 5 France.

Premise Of The Study: Phenological annotation models computed on large-scale herbarium data sets were developed and tested in this study.

Methods: Herbarium specimens represent a significant resource with which to study plant phenology. Nevertheless, phenological annotation of herbarium specimens is time-consuming, requires substantial human investment, and is difficult to mobilize at large taxonomic scales. Read More

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http://dx.doi.org/10.1002/aps3.1233DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426157PMC

Temperature controls phenology in continuously flowering species of subtropical Africa.

Appl Plant Sci 2019 Mar 7;7(3):e01232. Epub 2019 Mar 7.

Department of Plant and Soil Sciences University of Pretoria Pretoria 0083 South Africa.

Premise Of The Study: Herbarium specimens are increasingly used as records of plant flowering phenology. However, most herbarium-based studies on plant phenology focus on taxa from temperate regions. Here, we explore flowering phenologic responses to climate in the subtropical plant genus (Proteaceae), an iconic group of plants that flower year-round and are endemic to subtropical Africa. Read More

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http://dx.doi.org/10.1002/aps3.1232DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426162PMC

Integrating herbarium specimen observations into global phenology data systems.

Appl Plant Sci 2019 Mar 7;7(3):e01231. Epub 2019 Mar 7.

Florida Museum of Natural History University of Florida Gainesville Florida USA.

Premise Of The Study: The Plant Phenology Ontology (PPO) was originally developed to integrate phenology observations of whole plants across different global observation networks. Here we describe a new release of the PPO and associated data pipelines that supports integration of phenology observations from herbarium specimens, which provide historical and modern phenology data.

Methods And Results: Critical changes to the PPO include key terms that describe how measurements from parts of plants, which are captured in most imaged herbarium specimens, relate to whole plants. Read More

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http://dx.doi.org/10.1002/aps3.1231DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426164PMC

PhenoForecaster: A software package for the prediction of flowering phenology.

Appl Plant Sci 2019 Mar 12;7(3):e01230. Epub 2019 Mar 12.

Department of Ecology, Evolution, and Marine Biology University of California-Santa Barbara Santa Barbara California 93106 USA.

Premise Of The Study: Predicting the flowering times of angiosperm taxa is a goal of mounting importance in the face of future climate change, with applications not only in plant biology and ecology, but also horticulture, agriculture, and invasive species management. To date, no tool is available to facilitate predictions of flowering phenology using multivariate phenoclimatic models. Such a tool is needed by researchers and other stakeholders who need to predict phenological activity, but are unfamiliar with phenoclimate modeling techniques. Read More

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http://dx.doi.org/10.1002/aps3.1230DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426163PMC

Patterns and biases in an Arctic herbarium specimen collection: Implications for phenological research.

Appl Plant Sci 2019 Mar 11;7(3):e01229. Epub 2019 Mar 11.

Department of Biology Dalhousie University Halifax Nova Scotia Canada.

Premise Of The Study: Herbarium specimens are increasingly used in phenological studies. However, natural history collections can have biases that influence the analysis of phenological events. Arctic environments, where remoteness and cold climate govern collection logistics, may give rise to unique or pronounced biases. Read More

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http://dx.doi.org/10.1002/aps3.1229DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426279PMC

Testing Hopkins' Bioclimatic Law with PhenoCam data.

Appl Plant Sci 2019 Mar 18;7(3):e01228. Epub 2019 Mar 18.

Department of Earth and Atmospheric Sciences Cornell University Ithaca New York 14853 USA.

Premise Of The Study: We investigated the spatial and temporal patterns of vegetation phenology with phenometrics derived from PhenoCam imagery. Specifically, we evaluated the Bioclimatic Law proposed by Hopkins, which relates phenological transitions to latitude, longitude, and elevation.

Methods: "Green-up" and "green-down" dates-representing the start and end of the annual cycles of vegetation activity-were estimated from measures of canopy greenness calculated from digital repeat photography. Read More

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http://dx.doi.org/10.1002/aps3.1228DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426166PMC

Open-source data reveal how collections-based fungal diversity is sensitive to global change.

Appl Plant Sci 2019 Mar 12;7(3):e01227. Epub 2019 Mar 12.

Section for Genetics and Evolutionary Biology (EVOGENE) University of Oslo Blindernveien 31 0316 Oslo Norway.

Premise Of The Study: Fungal diversity (richness) trends at large scales are in urgent need of investigation, especially through novel situations that combine long-term observational with environmental and remotely sensed open-source data.

Methods: We modeled fungal richness, with collections-based records of saprotrophic (decaying) and ectomycorrhizal (plant mutualistic) fungi, using an array of environmental variables across geographical gradients from northern to central Europe. Temporal differences in covariables granted insight into the impacts of the shorter- versus longer-term environment on fungal richness. Read More

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http://dx.doi.org/10.1002/aps3.1227DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426159PMC
March 2019
1 Read

Phenology models using herbarium specimens are only slightly improved by using finer-scale stages of reproduction.

Appl Plant Sci 2019 Mar 7;7(3):e01225. Epub 2019 Mar 7.

Department of Biology University of Washington 24 Kincaid Hall Seattle Washington 98195 USA.

Premise Of The Study: Herbarium specimens are increasingly used to study reproductive phenology. Here, we ask whether classifying reproduction into progressively finer-scale stages improves our understanding of the relationship between climate and reproductive phenology.

Methods: We evaluated herbarium specimens across eastern North America, classifying them into eight reproductive phenophases and four stages of leaf development. Read More

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http://dx.doi.org/10.1002/aps3.1225DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426165PMC

A new method and insights for estimating phenological events from herbarium specimens.

Appl Plant Sci 2019 Mar 7;7(3):e01224. Epub 2019 Mar 7.

Department of Biological Science Florida State University 319 Stadium Drive Tallahassee Florida 32306 USA.

Premise Of The Study: A novel method of estimating phenology of herbarium specimens was developed to facilitate more precise determination of plant phenological responses to explanatory variables (e.g., climate). Read More

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http://dx.doi.org/10.1002/aps3.1224DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6426155PMC
March 2019
2 Reads

Isolation and characterization of microsatellite loci for (Ericaceae).

Appl Plant Sci 2019 Feb 21;7(2):e01222. Epub 2019 Feb 21.

School of Life Sciences Anhui University Hefei Anhui Province People's Republic of China.

Premise Of The Study: We developed microsatellite primers for (Ericaceae), a narrowly distributed species found in the Dabie Mountains, China, to study the genetic diversity, population structure, and evolutionary history of the species.

Methods And Results: Two terminal sequencing modes of the Illumina HiSeq platform were used to mine simple sequence repeat markers from large-scale transcriptional groups. In this study, 24 microsatellite loci were screened. Read More

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http://dx.doi.org/10.1002/aps3.1222DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384321PMC
February 2019
1 Read

A virus-induced gene-silencing system for functional genetics in a betalainic species, (Amaranthaceae).

Appl Plant Sci 2019 Feb 7;7(2):e01221. Epub 2019 Feb 7.

Department of Biology University of British Columbia Kelowna British Columbia Canada.

Premise Of The Study: Research in Amaranthaceae could be accelerated by developing methods for targeted gene silencing. Most amaranths, including , produce betalains. However, the physiological and ecological roles of these pigments are uncertain. Read More

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http://dx.doi.org/10.1002/aps3.1221DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384298PMC
February 2019

In vitro plant regeneration and -mediated transformation of (Solanaceae).

Appl Plant Sci 2019 Feb 7;7(2):e01220. Epub 2019 Feb 7.

Department of Botany and Plant Science University of California Riverside Batchelor Hall Riverside California 92521 USA.

Premise Of The Study: is a pharmacologically and evolutionarily important plant species in the family Solanaceae. Stable transformation methodology of this species would be advantageous for future genetic studies.

Methods: In vitro plant regeneration and -mediated transformation techniques were developed for based on methods reported for tomato. Read More

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http://dx.doi.org/10.1002/aps3.1220DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384296PMC
February 2019
1 Read

Development and characterization of genomic SSR markers for (Tamaricaceae).

Appl Plant Sci 2019 Feb 30;7(2):e01219. Epub 2019 Jan 30.

Key Laboratory of Forest Genetics and Biotechnology Nanjing Forestry University Ministry of Education Nanjing 210037 People's Republic of China.

Premise Of The Study: We developed a set of microsatellite markers to study the population genetic structure, mating system, and interspecific hybridization of (Tamaricaceae), an alkali- and salt-tolerant shrub endemic to China, Korea, and Japan.

Methods And Results: Using Illumina sequencing, we developed 10 polymorphic and 11 monomorphic microsatellite primers. High levels of polymorphism were detected in four populations. Read More

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http://dx.doi.org/10.1002/aps3.1219DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384293PMC
February 2019
1 Read

Development of microsatellite markers for a monotypic and globally endangered species, (Cupressaceae).

Appl Plant Sci 2019 Feb 5;7(2):e01217. Epub 2019 Feb 5.

Key Laboratory of Plant Resources Conservation and Sustainable Utilization South China Botanical Garden Chinese Academy of Sciences Guangzhou 510650 People's Republic of China.

Premise Of The Study: Microsatellite markers were developed to facilitate studies of genetic diversity and structure in , a critically endangered and monotypic conifer species.

Methods And Results: Using restriction site-associated DNA sequencing (RAD-Seq), we developed 10 polymorphic and 27 monomorphic microsatellite markers. Polymorphism was characterized using 333 individuals from nine populations. Read More

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http://dx.doi.org/10.1002/aps3.1217DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384295PMC
February 2019
2 Reads

ReFernment: An R package for annotating RNA editing in plastid genomes.

Appl Plant Sci 2019 Feb 30;7(2):e01216. Epub 2019 Jan 30.

Department of Biology Utah State University Logan Utah USA.

Premise Of The Study: In the absence of cDNA, the annotation of RNA editing in plastomes must be done manually, representing a significant time cost to those studying the organellar genomes of ferns and hornworts.

Methods And Results: We developed an R package to automatically annotate apparent nonsense mutations in plastid genomes. The software successfully annotates such sites and results in no false positives for data with no sequencing or assembly errors. Read More

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http://dx.doi.org/10.1002/aps3.1216DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384294PMC
February 2019

Development of 15 microsatellite loci in the endangered subsp. (Brassicaceae).

Appl Plant Sci 2019 Feb 30;7(2):e01215. Epub 2019 Jan 30.

Department of Environmental Sciences Mills College 5000 MacArthur Blvd. Oakland California 94613 USA.

Premise Of The Study: The endangered subsp. (Brassicaceae) is endemic to a single peninsula in California and threatened by fragmentation. We developed microsatellite markers to investigate genetic diversity in the two extant populations and the degree to which they have diverged from one another. Read More

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http://dx.doi.org/10.1002/aps3.1215DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6384297PMC
February 2019
2 Reads

Development of novel EST-SSR markers for (Ephedraceae) by transcriptome database mining.

Appl Plant Sci 2019 Jan 16;7(1):e01212. Epub 2019 Jan 16.

Beijing Advanced Innovation Center for Tree Breeding by Molecular Design National Engineering Laboratory for Tree Breeding Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants Ministry of Education College of Biological Sciences and Technology Beijing Forestry University Beijing 100083 People's Republic of China.

Premise Of The Study: (Ephedraceae) is a gymnosperm shrub with a wide distribution across Central and Eastern Asia. It is widely cultivated as a medicinal plant, but its wild populations are monitored to determine whether protection is needed.

Methods And Results: Thirty-six microsatellite markers, including 11 polymorphic markers, were developed from RNA-Seq data deposited in the National Center for Biotechology Information dbEST database. Read More

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http://doi.wiley.com/10.1002/aps3.1212
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http://dx.doi.org/10.1002/aps3.1212DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342172PMC
January 2019
4 Reads

STABILITYSOFT: A new online program to calculate parametric and non-parametric stability statistics for crop traits.

Appl Plant Sci 2019 Jan 15;7(1):e01211. Epub 2019 Jan 15.

The UWA Institute of Agriculture The University of Western Australia LB 5005 Perth Western Australia 6001 Australia.

Premise Of The Study: Access to improved crop cultivars is the foundation for successful agriculture. New cultivars must have improved yields that are determined by quantitative and qualitative traits. Genotype-by-environment interactions (GEI) occur for quantitative traits such as reproductive fitness, longevity, height, weight, yield, and disease resistance. Read More

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http://dx.doi.org/10.1002/aps3.1211DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342234PMC
January 2019
1 Read

A high-throughput method of analyzing multiple plant defensive compounds in minimized sample mass.

Appl Plant Sci 2019 Jan 8;7(1):e01210. Epub 2019 Jan 8.

Department of Plant Pathology Washington State University Pullman Washington 99164 USA.

Premise Of The Study: Current methods for quantifying herbivore-induced alterations in plant biochemistry are often unusable by researchers due to practical constraints. We present a cost-effective, high-throughput protocol to quantify multiple biochemical responses from small plant tissue samples using spectrophotometric techniques.

Methods And Results: Using and leaves pre- and post-herbivory, we demonstrate that our protocol quantifies common plant defense responses: peroxidase production, polyphenol oxidase production, reactive oxygen species production, total protein production, and trypsin-like protease inhibition activity. Read More

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http://dx.doi.org/10.1002/aps3.1210DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342235PMC
January 2019
2 Reads

Development and characterization of EST-SSR markers for var. (Lamiaceae).

Appl Plant Sci 2019 Jan 7;7(1):e01209. Epub 2019 Jan 7.

Institute of Ecology and Biodiversity School of Life Sciences Shandong University Qingdao 266237 People's Republic of China.

Premise Of The Study: var. (Lamiaceae) is a dominant shrub in the warm temperate zone of northern China. Expressed sequence tag-simple sequence repeat (EST-SSR) markers were developed to investigate its genetic diversity and structure. Read More

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http://dx.doi.org/10.1002/aps3.1209DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342176PMC
January 2019

Characterization of 30 microsatellite markers in distylous (Primulaceae) using HiSeq sequencing.

Appl Plant Sci 2019 Jan 3;7(1):e01208. Epub 2019 Jan 3.

Plant Germplasm and Genomics Center Germplasm Bank of Wild Species Kunming Institute of Botany Chinese Academy of Sciences Kunming 650201 Yunnan People's Republic of China.

Premise Of The Study: Microsatellite markers were developed for , a perennial distylous herb belonging to section (Primulaceae), to facilitate future investigations of the population genetics and mating patterns of populations in this species.

Methods And Results: We developed 30 microsatellite markers for using HiSeq X-Ten sequencing and measured polymorphism and genetic diversity in a sample of 36 individuals from three natural populations. The markers displayed relatively high polymorphism, with the number of observed alleles per locus ranging from one to 19 (mean = 4. Read More

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http://doi.wiley.com/10.1002/aps3.1208
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http://dx.doi.org/10.1002/aps3.1208DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342175PMC
January 2019
5 Reads

and Visualizing chromosome count data from plants.

Appl Plant Sci 2019 Jan 4;7(1):e01207. Epub 2019 Jan 4.

Department of Ecology, Evolution, and Behavior University of Minnesota 1479 Gortner Avenue St. Paul Minnesota 55108 USA.

Premise Of The Study: Chromosome count data are available for hundreds of plant species and can be explored in text-only format at the Chromosome Counts Database (http://ccdb.tau.ac. Read More

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http://dx.doi.org/10.1002/aps3.1207DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342174PMC
January 2019

Transcriptome analysis of maca () root at different developmental stages.

Appl Plant Sci 2018 Dec 17;6(12):e01206. Epub 2018 Dec 17.

Research Institute of Resource Insects Chinese Academy of Forestry Kunming 650224 Yunnan People's Republic of China.

Premise Of The Study: Maca (; Brassicaceae) has been cultivated by Andeans for thousands of years as a food source and has been used for medicinal purposes. However, little is known about the mechanism underlying material accumulation during plant growth.

Methods: RNA-Seq technology was used to compare the transcriptome of black maca root at three developmental stages. Read More

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http://doi.wiley.com/10.1002/aps3.1206
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http://dx.doi.org/10.1002/aps3.1206DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303156PMC
December 2018
16 Reads

Isolation and characterization of microsatellite loci from (Juglandaceae).

Appl Plant Sci 2018 Dec 5;6(12):e01205. Epub 2018 Dec 5.

South China Botanical Garden Chinese Academy of Sciences Guangzhou 510650 People's Republic of China.

Premise Of The Study: Microsatellite markers of (Juglandaceae) were developed for future studies on the population genetic diversity and spatial genetic structure of the species.

Methods And Results: Based on Illumina sequencing of the transcriptome of , a total of 2452 microsatellites were identified from 83,674 assembled unigenes. One hundred microsatellites were randomly selected to design amplification primer pairs. Read More

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http://dx.doi.org/10.1002/aps3.1205DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303151PMC
December 2018

Shape outline extraction software (DiaOutline) for elliptic Fourier analysis application in morphometric studies.

Appl Plant Sci 2018 Dec 21;6(12):e01204. Epub 2018 Dec 21.

Research and Collections Canadian Museum of Nature Ottawa Ontario K1P 6P4 Canada.

Premise Of The Study: Studies of plant cell and organ outline using shape analysis for taxonomic and morphological research have increased in the past decade. However, there are a limited number of available modern, intuitive, and easy software tools to conduct this work.

Methods: We developed a tool for shape outline extraction using MATLAB accompanied with R scripts to perform elliptic Fourier analysis. Read More

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http://dx.doi.org/10.1002/aps3.1204DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303154PMC
December 2018

Microsatellite primer development for the invasive perennial herb (Caryophyllaceae).

Appl Plant Sci 2018 Dec 11;6(12):e01203. Epub 2018 Dec 11.

Annis Water Resources Institute Grand Valley State University (AWRI-GVSU) 740 W. Shoreline Drive Muskegon Michigan 49441 USA.

Premise Of The Study: (baby's breath; Caryophyllaceae) is a herbaceous perennial that has invaded much of northern and western United States and Canada, outcompeting and crowding out native and endemic species. Microsatellite primers were developed to analyze the genetic structure of invasive populations.

Methods And Results: We identified 16 polymorphic nuclear microsatellite loci for out of 73 loci that successfully amplified from a primer library created using Illumina sequencing technology. Read More

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http://dx.doi.org/10.1002/aps3.1203DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303149PMC
December 2018

Microsatellite markers for the prized matsutake mushroom (, Tricholomataceae).

Appl Plant Sci 2018 Dec 10;6(12):e01202. Epub 2018 Dec 10.

Yunnan Key Laboratory for Wild Plant Resources Kunming Institute of Botany Chinese Academy of Sciences Kunming Yunnan People's Republic of China.

Premise Of The Study: Novel and cost-effective microsatellite markers were developed to explore the population genetics, biogeographic structure, and evolutionary history of the prized Euro-Asian wild edible ectomycorrhizal fungus (Tricholomataceae).

Methods And Results: Eighteen new polymorphic simple sequence repeat loci, detected from a microsatellite-enriched genomic library, were used to characterize 131 individuals from eight populations. The number of alleles ranged from two to 10, with averages of 1. Read More

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https://onlinelibrary.wiley.com/doi/abs/10.1002/aps3.1202
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http://dx.doi.org/10.1002/aps3.1202DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303152PMC
December 2018
8 Reads

Advances in genotyping microsatellite markers through sequencing and consequences of scoring methods for (Leguminosae).

Appl Plant Sci 2018 Dec 11;6(12):e01201. Epub 2018 Dec 11.

Institut Méditerranéen de Biodiversité et d'Ecologie marine et continentale (IMBE) [IMBE is sponsored by Aix Marseille University, Avignon University, Centre National de la Recherche Scientifique (CNRS), and Institut de Recherche pour le Développement (IRD)] Station marine d'Endoume, Chemin de la Batterie des Lions FR-13007 Marseille France.

Premise Of The Study: Simple sequence repeat (SSR) or microsatellite markers have been used in a broad range of studies mostly scoring alleles on the basis of amplicon size as a proxy for the number of repeat units of an SSR motif. However, additional sources of variation within the SSR or in the flanking regions have largely remained undetected.

Methods: In this study, we implemented a next-generation sequencing-based genotyping approach in a newly characterized set of 18 nuclear SSR markers for the carob tree, . Read More

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http://dx.doi.org/10.1002/aps3.1201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303155PMC
December 2018
1 Read

Development and characterization of 30 microsatellite loci for (Berberidaceae).

Appl Plant Sci 2018 Dec 4;6(12):e01200. Epub 2018 Dec 4.

Department of Life Science Hallym University Chuncheon 24252 Republic of Korea.

Premise Of The Study: (Berberidaceae) has been listed as an endangered species in Korea due to extensive collection and destruction of natural habitats. In this study, 30 microsatellite loci, including 25 polymorphic loci, were developed for for use in population-level genetic analyses.

Methods And Results: We carried out transcriptome sequencing and isolated a total of 30 expressed sequence tag-simple sequence repeat markers from using Illumina HiSeq high-throughput sequencing. Read More

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http://doi.wiley.com/10.1002/aps3.1200
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http://dx.doi.org/10.1002/aps3.1200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303150PMC
December 2018
1 Read

Development, characterization, and cross-amplification of microsatellite markers for (Caryophyllaceae).

Appl Plant Sci 2018 Dec 4;6(12):e01199. Epub 2018 Dec 4.

Faculty of Traditional Chinese Pharmacy Yunnan University of Traditional Chinese Medicine Kunming Yunnan 650500 People's Republic of China.

Premise Of The Study: (Caryophyllaceae) is a narrowly distributed and endemic plant species in southwestern China. The overexploitation of natural has led to the destruction of many populations. Population and genetic studies will provide crucial data for the protection and management of . Read More

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http://doi.wiley.com/10.1002/aps3.1199
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http://dx.doi.org/10.1002/aps3.1199DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6303153PMC
December 2018
10 Reads

Development of 17 novel microsatellite markers for and (Amaryllidaceae) using next-generation sequencing.

Appl Plant Sci 2018 Nov 14;6(11):e01198. Epub 2018 Nov 14.

Department of Agronomy National Taiwan University No. 1, Sec. 4, Roosevelt Road Taipei 10617 Taiwan.

Premise Of The Study: is an ornamental and medicinal plant. We developed microsatellite markers for and simultaneously by using a hybrid between these two species.

Methods And Results: Ion Torrent next-generation sequencing produced 1,784,504 reads. Read More

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http://doi.wiley.com/10.1002/aps3.1198
Publisher Site
http://dx.doi.org/10.1002/aps3.1198DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240451PMC
November 2018
2 Reads

Comparing RNA-Seq and microarray gene expression data in two zones of the root apex relevant to spaceflight.

Appl Plant Sci 2018 Nov 14;6(11):e01197. Epub 2018 Nov 14.

Department of Horticultural Sciences Program in Plant Molecular and Cellular Biology University of Florida Gainesville Florida 32611 USA.

Premise Of The Study: The root apex is an important region involved in environmental sensing, but comprises a very small part of the root. Obtaining root apex transcriptomes is therefore challenging when the samples are limited. The feasibility of using tiny root sections for transcriptome analysis was examined, comparing RNA sequencing (RNA-Seq) to microarrays in characterizing genes that are relevant to spaceflight. Read More

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http://dx.doi.org/10.1002/aps3.1197DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240453PMC
November 2018
1 Read

In silico detection of polymorphic microsatellites in the endangered Isis tamarind, (Sapindaceae).

Appl Plant Sci 2018 Nov 15;6(11):e01196. Epub 2018 Nov 15.

GeneCology Research Centre Faculty of Science Health, Engineering, and Education University of the Sunshine Coast Maroochydore DC Queensland 4558 Australia.

Premise Of The Study: (Sapindaceae) is an endangered rainforest tree known from only two populations. In this study, we identified polymorphic microsatellites, in silico, improving the effectiveness and efficiency of microsatellite development of nonmodel species. The development of genetic markers will support future conservation management of the species. Read More

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http://doi.wiley.com/10.1002/aps3.1196
Publisher Site
http://dx.doi.org/10.1002/aps3.1196DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240448PMC
November 2018
1 Read

Fifteen microsatellite markers for the Appalachian rockcap fern, (Polypodiaceae), and its relatives.

Appl Plant Sci 2018 Nov 8;6(11):e01195. Epub 2018 Nov 8.

Department of Biological Sciences Butler University 4600 Sunset Avenue Indianapolis Indiana 46208 USA.

Premise Of The Study: Microsatellite markers were developed for (Polypodiaceae) to facilitate investigation of species boundaries between and its putative hybrid, , and potentially among other members of the Miocene-age species complex.

Methods And Results: Forty-eight primer pairs were designed from Illumina data and screened for successful amplification. Sixteen pairs were genotyped and evaluated for variability within and among three populations in North Carolina, Vermont, and New Hampshire. Read More

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http://dx.doi.org/10.1002/aps3.1195DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240454PMC
November 2018
1 Read

GC-MS metabolite profiling for specific detection of dwarf somaclonal variation in banana plants.

Appl Plant Sci 2018 Nov 12;6(11):e01194. Epub 2018 Nov 12.

Centro de Investigaciones Biotecnológicas del Ecuador Escuela Superior Politécnica del Litoral, ESPOL Campus Gustavo Galindo Km 30.5 Vía Perimetral, P.O. Box 09-01-5863 Guayaquil Ecuador.

Premise Of The Study: The production of banana ( spp.; Musaceae) plants is affected by various types of somaclonal variations (SV), including dwarfism. However, methods for specific detection of SV are still scarce. Read More

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http://doi.wiley.com/10.1002/aps3.1194
Publisher Site
http://dx.doi.org/10.1002/aps3.1194DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240455PMC
November 2018
12 Reads

iNaturalist as a tool to expand the research value of museum specimens.

Appl Plant Sci 2018 Nov 7;6(11):e01193. Epub 2018 Nov 7.

Section of Botany Carnegie Museum of Natural History 4400 Forbes Avenue Pittsburgh Pennsylvania 15213 USA.

Premise Of The Study: Innovative approaches to specimen collection and curation are needed to maximize the utility of natural history collections in a new era of data use. Associated data, such as digital images from the field, are routinely collected with recent herbarium specimens. However, these data often remain inaccessible and are rarely curated alongside the associated physical specimens, which limits future data use. Read More

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http://dx.doi.org/10.1002/aps3.1193DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240452PMC
November 2018
1 Read

Microsatellite markers for (Orchidaceae) species in New Zealand.

Appl Plant Sci 2018 Nov 9;6(11):e01192. Epub 2018 Nov 9.

Institute of Fundamental Sciences Massey University Palmerston North 4442 New Zealand.

Premise Of The Study: Microsatellite markers were developed for New Zealand species of (Orchidaceae) to investigate population genetics and species delimitation.

Methods And Results: From sequencing a total genomic DNA library (using Illumina MiSeq), we developed 22 microsatellite markers for . The di- and trinucleotide repeat loci were initially trialed on individuals representing seven taxa (. Read More

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http://dx.doi.org/10.1002/aps3.1192DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6240450PMC
November 2018

Tolerance strategies revealed in tree peony (; Paeoniaceae) ecotypes differentially adapted to desiccation.

Appl Plant Sci 2018 Oct 25;6(10):e01191. Epub 2018 Oct 25.

College of Agriculture Henan University of Science and Technology Luoyang 471023 People's Republic of China.

Premise Of The Study: Tree peony (; Paeoniaceae) is well known for its ornamental value, edible oil, and medicinal properties. However, its growing area has been limited by drought that has been exacerbated by global climate change.

Methods: Gene expression profiles of a drought-tolerant cultivar and a drought-sensitive cultivar during dehydration and rehydration were investigated by transcriptome analysis. Read More

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http://doi.wiley.com/10.1002/aps3.1191
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http://dx.doi.org/10.1002/aps3.1191DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201725PMC
October 2018
12 Reads

Identification and development of microsatellite markers in (Hamamelidaceae).

Appl Plant Sci 2018 Oct 23;6(10):e01189. Epub 2018 Oct 23.

State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources Sun Yat-sen University Guangzhou 510275 People's Republic of China.

Premise Of The Study: (Hamamelidaceae) is a Tertiary relict species endemic to southern China. Polymorphic microsatellite markers were developed to reveal the genetic diversity of this species.

Methods And Results: The genome of was sequenced and de novo assembled into 642,351 contigs. Read More

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http://dx.doi.org/10.1002/aps3.1189DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201723PMC
October 2018

Characterization of 39 microsatellite markers from (Nymphaeaceae) and cross-amplification in two related taxa.

Appl Plant Sci 2018 Oct 19;6(10):e01188. Epub 2018 Oct 19.

Department of Biological Sciences National Sun Yat-sen University Kaohsiung 804 Taiwan.

Premise Of The Study: Microsatellite loci were developed for (Nymphaeaceae) to evaluate the population genetic dynamics for conservation purposes. The species is an endemic aquatic species in Taiwan that is endangered by anthropogenic activities.

Methods And Results: A magnetic bead enrichment protocol was used to identify 72 potential microsatellite loci and develop 39 microsatellite markers from . Read More

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http://doi.wiley.com/10.1002/aps3.1188
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http://dx.doi.org/10.1002/aps3.1188DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201724PMC
October 2018
4 Reads

Reliability of acoustic tomography and ground-penetrating radar for tree decay detection.

Appl Plant Sci 2018 Oct 23;6(10):e01187. Epub 2018 Oct 23.

USDA Forest Service Forest Products Laboratory 1 Gifford Pinchot Drive Madison Wisconsin 53726-2398 USA.

Premise Of The Study: Various nondestructive testing technologies have been used for detecting and visualizing internal defects in urban trees. The results obtained by using different nondestructive testing tools can be interpreted in different ways, which may result in inaccurate assessment of the true condition of the inspected trees. The main objective of this study was to evaluate the reliability of acoustic tomography and ground-penetrating radar (GPR) technology for detecting internal decay in a number of different tree species. Read More

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http://dx.doi.org/10.1002/aps3.1187DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201721PMC
October 2018

Utilization of single-image normalized difference vegetation index (SI-NDVI) for early plant stress detection.

Appl Plant Sci 2018 Oct 19;6(10):e01186. Epub 2018 Oct 19.

Plant Molecular and Cellular Biology Program University of Florida Gainesville Florida USA.

Premise Of The Study: An imaging system was refined to monitor the health of vegetation grown in controlled conditions using spectral reflectance patterns. To measure plant health, the single-image normalized difference vegetation index (SI-NDVI) compares leaf reflectance in visible and near-infrared light spectrums.

Methods And Results: The SI-NDVI imaging system was characterized to assess plant responses to stress before visual detection during controlled stress assays. Read More

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http://doi.wiley.com/10.1002/aps3.1186
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http://dx.doi.org/10.1002/aps3.1186DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201722PMC
October 2018
9 Reads

Development and characterization of EST-SSR markers for (Cyperaceae), an extremophyte in solfatara fields.

Appl Plant Sci 2018 Oct 19;6(10):e01185. Epub 2018 Oct 19.

Graduate School of Human and Environmental Studies Kyoto University Yoshida-nihonmatsu-cho, Sakyo-ku Kyoto 606-8501 Japan.

Premise Of The Study: Expressed sequence tag-simple sequence repeat (EST-SSR) markers were developed for  (Cyperaceae) to investigate the evolutionary history of this plant that is endemic to solfatara fields in northern Japan.

Methods And Results: Using RNA-Seq data generated by the Illumina HiSeq 2000, 20 EST-SSR markers were developed. Polymorphisms were assessed in and the closely related species and . Read More

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http://doi.wiley.com/10.1002/aps3.1185
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http://dx.doi.org/10.1002/aps3.1185DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201717PMC
October 2018
1 Read

Development, characterization, and transferability of SSR markers for (Bromeliaceae) based on RNA sequencing.

Appl Plant Sci 2018 Oct 16;6(10):e01184. Epub 2018 Oct 16.

Programa de Pós-graduação em Genética e Biologia Molecular, Instituto de Biociências Universidade Federal do Rio Grande do Sul Avenida Bento Gonçalves 9500, P.O. Box 15053 91501-970 Porto Alegre Rio Grande do Sul Brazil.

Premise Of The Study: Expressed sequence tag-simple sequence repeat (EST-SSR) markers were isolated for , an endemic bromeliad from the Brazilian Atlantic Forest. These SSR loci may be used to investigate the genetic diversity and population structure of this species and related bromeliads.

Methods And Results: Based on the transcriptome data of , 30 primer pairs were designed and selected for initial validation. Read More

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http://dx.doi.org/10.1002/aps3.1184DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201730PMC
October 2018

NaOH low-salt method for chloroplast isolation and highly pure cpDNA preparation from .

Appl Plant Sci 2018 Sep 27;6(9):e01183. Epub 2018 Sep 27.

Department of Plant Breeding and Biotechnology University of Agricultural Sciences and Natural Resources Sari Iran.

Premise Of The Study: High-yield pure chloroplast DNA (cpDNA) is necessary for whole genome sequencing. Chloroplast extraction with traditional high-salt methods causes damage to nuclei and destroys the integrity of organelles, which leads to high genomic contamination from the nucleus and mitochondria. To overcome this issue, we modified a traditional high-salt method to obtain a new approach called the NaOH low-salt method (NLS). Read More

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http://dx.doi.org/10.1002/aps3.1183DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6159644PMC
September 2018
2 Reads

Regeneration of highland papaya () from anther culture.

Appl Plant Sci 2018 Sep 24;6(9):e01182. Epub 2018 Sep 24.

Sociedad de Investigación y Servicios BioTECNOS Ltda. Camino a Pangal, Km 2.5 San Javier Chile.

Premise Of The Study: is an important Caricaceae species cultivated in several countries of South America. The objective of this study was to investigate different media compositions and plant growth regulators to induce plant regeneration.

Methods: Anthers were cultured in Murashige and Skoog medium with varying concentrations of naphthalene acetic acid (NAA) and 2,4-dichlorophenoxyacetic acid (2,4-D) plus a cytokinin (N-(2-chloro-4-pyridyl)-N'-phenylurea). Read More

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http://doi.wiley.com/10.1002/aps3.1182
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http://dx.doi.org/10.1002/aps3.1182DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6159643PMC
September 2018
18 Reads

Molecular markers for (Poaceae) to study genetic variation in New Zealand.

Appl Plant Sci 2018 Sep 21;6(9):e1181. Epub 2018 Sep 21.

Manaaki Whenua Landcare Research 54 Gerald Street Lincoln 7608 New Zealand.

Premise Of The Study: Simple sequence repeat (SSR) markers were developed for the study of genetic diversity of New Zealand (Poaceae) and to support future studies in its native range.

Methods And Results: Genomic DNA was extracted from leaf material and subjected to Roche 454 sequencing. From a total of 745 putative SSRs, 48 with di- to pentanucleotide repeats were screened, 32 primer pairs were designed, and 15 polymorphic markers were optimized for multiplex PCR on 105 samples from four New Zealand regions. Read More

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http://dx.doi.org/10.1002/aps3.1181DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6159648PMC
September 2018
19 Reads

Development of microsatellite markers for the resin-yielding, non-timber forest product species (Burseraceae).

Appl Plant Sci 2018 Sep 19;6(9):e01180. Epub 2018 Sep 19.

School of Bio Sciences and Technology Vellore Institute of Technology University Vellore 632014 India.

Premise Of The Study: (Burseraceae) is an economically important aromatic, gum-resin-yielding, non-timber forest tree species. Microsatellite markers were developed for for the first time to study genetic diversity and population structure.

Methods And Results: A magnetic bead enrichment method was used to develop 16 microsatellite markers, of which 11 were polymorphic. Read More

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http://doi.wiley.com/10.1002/aps3.1180
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http://dx.doi.org/10.1002/aps3.1180DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6159645PMC
September 2018
2 Reads

Identification of sieve elements and companion cell protoplasts by a combination of brightfield and fluorescence microscopy.

Appl Plant Sci 2018 Sep 20;6(9):e01179. Epub 2018 Sep 20.

Citrus Research and Education Center Department of Horticultural Sciences Institute of Food and Agricultural Sciences University of Florida Lake Alfred Florida 33850 USA.

Premise Of The Study: Phloem-limited diseases are becoming increasingly pervasive, threatening the existence of crops worldwide. Studies of phloem diseases are complicated by the inaccessibility of the phloem tissue. Phloem cells are located deep inside the plant body, are interspersed with other cell types, are among the smallest cells in the plant kingdom, and make up a small percentage of the total cell population in a plant. Read More

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http://doi.wiley.com/10.1002/aps3.1179
Publisher Site
http://dx.doi.org/10.1002/aps3.1179DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6159646PMC
September 2018
1 Read

Development of 10 single-copy nuclear DNA markers for (Fabaceae), a rare medicinal plant.

Appl Plant Sci 2018 Sep 21;6(9):e01178. Epub 2018 Sep 21.

Key Laboratory of Plant Resources Conservation and Sustainable Utilization South China Botanical Garden Chinese Academy of Sciences Guangzhou 510650 People's Republic of China.

Premise Of The Study: (Fabaceae) is a rare and endangered medicinal plant in Indonesia with restricted distribution. Single-copy nuclear DNA (scnDNA) markers were developed for this species to facilitate further investigation of genetic diversity and population structure.

Methods And Results: We performed RNA-Seq and de novo assembly of the transcriptome. Read More

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http://doi.wiley.com/10.1002/aps3.1178
Publisher Site
http://dx.doi.org/10.1002/aps3.1178DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6159642PMC
September 2018
11 Reads