GRABSEEDS: extraction of plant organ traits through image analysis.

Background: Phenotyping of plant traits presents a significant bottleneck in Quantitative Trait Loci (QTL) mapping and genome-wide association studies (GWAS). Computerized phenotyping using digital images promises rapid, robust, and reproducible measurements of dimension, shape, and color traits of plant organs, including grain, leaf, and floral traits.

Results: We introduce GRABSEEDS, which is specifically tailored to extract a comprehensive set of features from plant images based on state-of-the-art computer vision and deep learning methods.

Ryegrass uptake behavior and forage risk assessment after exposing to soil with combined polycyclic aromatic hydrocarbons and cadmium.

Internalization of chemicals and the forage risks of ryegrass under the combined exposure to PAHs and Cd at environmental concentrations were studied here. The effect of soil pH was also concerned due to the widely occurred soil acidification and general alkali remediation for acidification soil. Unexpectedly, as same as the acid-treated group (pH 6.

Sorghum SbGhd7 is a major regulator of floral transition and directly represses genes crucial for flowering activation.

Molecular genetic understanding of flowering time regulation is crucial for sorghum development. GRAIN NUMBER, PLANT HEIGHT AND HEADING DATE 7 (SbGhd7) is one of the six classical loci conferring photoperiod sensitivity of sorghum flowering. However, its functions remain poorly studied.

Rice Seedlings and Microorganisms Mediate Biotransformation of Se in CdSe/ZnS Quantum Dots to Volatile Alkyl Selenides.

Quantum dots (QDs) are widely applied and inevitably released into the environment. The biotransformation of Se in typical CdSe/ZnS QDs coated with glutathione (CdSe/ZnS-GSH) to volatile alkyl selenides and the fate of alkyl selenides in the hydroponically grown rice system were investigated herein. After a 10-day exposure to CdSe/ZnS-GSH (100 nmol L), seven alkyl selenides, dimethyl selenide (DMSe), dimethyl diselenide (DMDSe), methyl selenol (MSeH), ethylmethyl selenide (EMSe), ethylmethyl diselenide (EMDSe), dimethyl selenenyl sulfide (DMSeS), and ethylmethyl selenenyl sulfide (EMSeS), were detected in the exposure system using the suspect screening strategy.

Discussion: Prioritize perennial grain development for sustainable food production and environmental benefits.

Perennial grains have potential to contribute to ecological intensification of food production by enabling the direct harvest of human-edible crops without requiring annual cycles of disturbance and replanting. Studies of prototype perennial grains and other herbaceous perennials point to the ability of agroecosystems including these crops to protect water quality, enhance wildlife habitat, build soil quality, and sequester soil carbon. However, genetic improvement of perennial grain candidates has been hindered by limited investment due to uncertainty about whether the approach is viable.

Accumulation, translocation, and transformation of two CdSe/ZnS quantum dots in rice and pumpkin plants.

As a widely applied semiconductor nanomaterial, quantum dots (QDs) have drawn considerable interest. In this study, pumpkin and rice seedlings were hydroponically exposed to two core/shell CdSe/ZnS QDs coated with cysteamine (CdSe/ZnS-CA) and polyethylene glycol-carboxy (CdSe/ZnS-PEG-COOH) for 10 days to analyze their time-varying uptake, translocation, and transformation behaviors in plants. Both QDs were mainly adsorbed/absorbed by the roots in the particulate state, and more CdSe/ZnS-CA accumulated than CdSe/ZnS-PEG-COOH.

Bromophenol Induced Multiple Stress Responses in Rice Plants: Impact of Doses and Congener Structures.

Bromophenols (BPs) have both natural and artificial sources in the environment and are frequently detected in plants. Herein, the ubiquitous 2,4,6-TriBP was hydroponically exposed to rice seedlings at two concentrations (0.2 and 2.

Two Typical Glycosylated Metabolites of Tetrabromobisphenol A Formed in Plants: Excretion and Deglycosylation in Plant Root Zones.

The glycosylation process was investigated for the common brominated flame retardant tetrabromobisphenol A (TBBPA) in hydroponic exposure systems with pumpkin seedlings. Two typical glycosylation metabolites of TBBPA formed in pumpkin seedlings, TBBPA mono--d-glucopyranoside (TBBPA MG) and TBBPA di--d-glucopyranoside (TBBPA DG), increasing their mass early in the exposure (reaching maximum masses of 608 ± 53 and 3806 ± 1570 pmol at 12 h, respectively) and then falling throughout exposure. These two metabolites were released from roots to rhizosphere solutions, where they also exhibited initial increases followed by decreasing trends (reaching maximum masses of 595 ± 272 pmol at 3 h and 77.

Comparative evolution of vegetative branching in sorghum.

Tillering and secondary branching are two plastic traits with high agronomic importance, especially in terms of the ability of plants to adapt to changing environments. We describe a quantitative trait analysis of tillering and secondary branching in two novel BC1F2 populations totaling 246 genotypes derived from backcrossing two Sorghum bicolor x S. halepense F1 plants to a tetraploidized S.

Compartmentalization and Excretion of 2,4,6-Tribromophenol Sulfation and Glycosylation Conjugates in Rice Plants.

The most environmentally abundant bromophenol congener, 2,4,6-tribromophenol (2,4,6-TBP, 6.06 μmol/L), was exposed to rice for 5 d both in vivo (intact seedling) and in vitro (suspension cell) to systematically characterize the fate of its sulfation and glycosylation conjugates in rice. The 2,4,6-TBP was rapidly transformed to produce 6 [rice cells (3 h)] and 8 [rice seedlings (24 h)] sulfated and glycosylated conjugates.

Quantitative trait mapping of plant architecture in two BCF populations of Sorghum Bicolor × S. halepense and comparisons to two other sorghum populations.

Comparing populations derived, respectively, from polyploid Sorghum halepense and its progenitors improved knowledge of plant architecture and showed that S. halepense harbors genetic novelty of potential value for sorghum improvement Vegetative growth and the timing of the vegetative-to-reproductive transition are critical to a plant's fitness, directly and indirectly determining when and how a plant lives, grows and reproduces. We describe quantitative trait analysis of plant height and flowering time in the naturally occurring tetraploid Sorghum halepense, using two novel BCF populations totaling 246 genotypes derived from backcrossing two tetraploid Sorghum bicolor x S.

Genetic Analysis of Stem Diameter and Water Contents To Improve Sorghum Bioenergy Efficiency.

Biofuel made from agricultural products has the potential in contribute to a stable supply of fuel for growing energy demands. Some salient plant traits, such as stem diameter and water content, and their relationship to other important biomass-related traits are so far poorly understood. Here, we performed QTL mapping for three stem diameter and two water content traits in a BTx623 x IS3620c recombinant inbred line population of 399 genotypes, and validated the genomic regions identified using genome-wide association studies (GWAS) in a diversity panel of 354 accessions.

Uptake, phytovolatilization, and interconversion of 2,4-dibromophenol and 2,4-dibromoanisole in rice plants.

The structural analogs, 2,4-dibromophenol (2,4-DBP) and 2,4-dibromoanisole (2,4-DBA), have both natural and artificial sources and are frequently detected in environmental matrices. Their environmental fates, especially volatilization, including both direct volatilization from cultivation solution and phytovolatilization through rice plants were evaluated using hydroponic exposure experiments. Results showed that 2,4-DBA displayed stronger volatilization tendency and more bioaccumulation in aboveground rice tissues.

The Evolution of an Invasive Plant, L. ('Johnsongrass').

From noble beginnings as a prospective forage, polyploid ('Johnsongrass') is both an invasive species and one of the world's worst agricultural weeds. Formed by x hybridization, we show to have -enriched allele composition and striking mutations in 5,957 genes that differentiate it from representatives of its progenitor species and an outgroup. The spread of may have been facilitated by introgression from closely-related cultivated sorghum near genetic loci affecting rhizome development, seed size, and levels of lutein, a photochemical protectant and abscisic acid precursor.

Transmission Genetics of a × Backcross Populations.

Despite a "ploidy barrier," interspecific crosses to wild and/or cultivated sorghum (, 2n = 2x = 20) may have aided the spread across six continents of , also exemplifying risks of "transgene escape" from crops that could make weeds more difficult to control. Genetic maps of two BCF populations derived from crosses of (sorghum) and with totals of 722 and 795 single nucleotide polymorphism (SNP) markers span 37 and 35 linkage groups, with 2-6 for each of the 10 basic sorghum chromosomes due to fragments covering different chromosomal portions or independent segregation from different homologs. Segregation distortion favored alleles on chromosomes 2 (1.

Transformation of 1,1,1,3,8,10,10,10-octachlorodecane in air phase increased by phytogenic volatile organic compounds of pumpkin seedlings.

Short chain chlorinated paraffins (SCCPs) are widely distributed persistent organic pollutants (POPs). Airborne chlorodecanes were hypothesized to be transformed by reactive phytogenic volatile organic compounds (PVOCs) in our previous work. To test this hypothesis, PVOCs of pumpkin (Cucurbita maxima x C.

Abiotic Methylation of Tetrabromobisphenol A (TBBPA) with the Occurrence of Methyl Iodide in Aqueous Environments.

Tetrabromobisphenol A (TBBPA) is the most widely used brominated flame retardant in the world. Its biotic methylation products, tetrabromobisphenol A mono- and dimethyl ether (TBBPA MME and TBBPA DME, respectively), are frequently detected in the environment, but the importance of abiotic methylation reactions of TBBPA in the environment is not known. In this study, the methylation of TBBPA mediated by methyl iodide (CHI), a ubiquitous compound in aqueous environments, was investigated in simulated waters in the laboratory.

Occurrences of perfluoroalkyl and polyfluoroalkyl substances in tree bark: Interspecies variability related to chain length.

Occurrences of perfluoroalkyl and polyfluoroalkyl substances (PFASs) in tree bark from four species were investigated. Species-dependent congener distribution patterns were firstly reported for perfluorocarboxylic acids (PFCAs) and perfluoroalkyl sulfonic acids (PFSAs). The majority of PFSAs and PFCAs in Chinese red pine bark were C5-C7 PFSAs and perfluorohexanoic acid (PFHxA, containing six carbon atoms, C6), whereas perfluorobutanesulfonic acid (PFBS, C4) and longer chain congeners (PFCAs: C ≥ 7; PFSAs: C ≥ 8) took a larger proportion in the fissured bark from Canadian poplar, Chinese scholartree and weeping willow.

Multiple Metabolic Pathways of 2,4,6-Tribromophenol in Rice Plants.

Bromophenols occur naturally and are used globally as man-made additives in various industrial products. They are decomposition products of many emerging organic pollutants, such as tetrabromobisphenol A, polybrominated dibenzo- p-dioxin (PBDD), polybrominated diphenyl ethers (PBDE), and others. To characterize their biotransformation pathways, bromophenol congener 2,4,6-tribromophenol, being used most frequently in the synthesis of brominated flame retardants and having the greatest environmental abundance, was selected to hydroponically expose rice plants.

Heritability of the aged glutathione phenotype is dependent on tissue of origin.

Glutathione is a ubiquitous antioxidant that protects cells against reactive oxygen species and other chemical stressors. Despite its functional importance, the impact of genetics on the glutathione system has yet to be fully appreciated. Here, we investigated the heritability of glutathione levels and redox status in a disease-relevant condition: advanced age.

Genotyping by Sequencing of 393 BTx623 × IS3620C Recombinant Inbred Lines Improves Sensitivity and Resolution of QTL Detection.

We describe a genetic map with a total of 381 bins of 616 genotyping by sequencing (GBS)-based SNP markers in a F-F recombinant inbred line (RIL) population of 393 individuals derived from crossing BTx623 to IS3620C, a guinea line substantially diverged from BTx623. Five segregation distorted regions were found with four showing enrichment for alleles, suggesting possible selection during formation of this RIL population. A quantitative trait locus (QTL) study with this number of individuals, tripled relative to prior studies of this cross, provided resources, validated previous findings, and demonstrated improved power to detect plant height and flowering time related QTL relative to other published studies.

Multi-Phase US Spread and Habitat Switching of a Post-Columbian Invasive, Sorghum halepense.

Johnsongrass (Sorghum halepense) is a striking example of a post-Columbian founder event. This natural experiment within ecological time-scales provides a unique opportunity for understanding patterns of continent-wide genetic diversity following range expansion. Microsatellite markers were used for population genetic analyses including leaf-optimized Neighbor-Joining tree, pairwise FST, mismatch analysis, principle coordinate analysis, Tajima's D, Fu's F and Bayesian clusterings of population structure.

Application of genotyping by sequencing technology to a variety of crop breeding programs.

Since the Arabidopsis genome was completed, draft sequences or pseudomolecules have been published for more than 100 plant genomes including green algae, in large part due to advances in sequencing technologies. Advanced DNA sequencing technologies have also conferred new opportunities for high-throughput low-cost crop genotyping, based on single-nucleotide polymorphisms (SNPs). However, a recurring complication in crop genotyping that differs from other taxa is a higher level of DNA sequence duplication, noting that all angiosperms are thought to have polyploidy in their evolutionary history.

Genetic analysis of rhizomatousness and its relationship with vegetative branching of recombinant inbred lines of Sorghum bicolor × S. propinquum.

Premise Of The Study: Rhizomes, subterranean stems that grow horizontally, are a storage organ that is highly associated with overwintering and regrowth. This quantitative study aimed to discover genetic determinants of rhizomatousness, an important trait related to perenniality and invasiveness.

Methods: A population of 161 individuals of a recombinant inbred line (RIL) derived from morphologically distinct parents, Sorghum bicolor and Sorghum propinquum, which segregates for rhizomatousness, was phenotyped and genetically mapped.