Whole-Genome Sequencing Revealed a Late-Maturing Isogenic Rice Koshihikari Integrated with Hd16 Gene Derived from an Ise Shrine Mutant

We identified the key genes controlling the late maturation of the Japonica cultivar Isehikari, which was found at Ise Jingu Shrine and matures 6 days later than Koshihikari. We conducted a genetics-based approach through this study. First, the latest mature plants, which flowered later than Isehikari, were segregated in the F2 and F3 generations of Koshihikari×Isehikari. Next, the linkage relationship of a single late-maturing gene with the SSR markers on the long arm of chromosome 3 was inferred by using late-maturing homozygous F2 segregants. Moreover, genetic analyses of late maturity were conducted through the process of six times of continuous backcross with Koshihikari as a recurrent parent by using the late-maturing homozygous F3 line as a nonrecurrent parent, thus developing a late-maturing isogenic Koshihikari (BC6F2). As a result, we elucidated a single late-maturing gene with incomplete dominance that caused the 14-day maturation delay of Koshihikari. The whole-genome sequencing was conducted on both of Koshihikari and the late-maturing isogenic Koshihikari. Then, the SNP call was conducted as the reference genome of Koshihikari. Finally, a single SNP was identified in the key gene Hd16 of the late-maturing isogenic Koshihikari.

The effect of bio-banding on academy soccer player passing networks: Implications of relative pitch size

The primary aims of this study were to examine the effects of bio-banding players on passing networks created during 4v4 small-sided games (SSGs), while also examining the interaction of pitch size using passing network analysis compared to a coach-based scoring system of player performance. Using a repeated measures design, 32 players from two English Championship soccer clubs contested mixed maturity and bio-banded SSGs. Each week, a different pitch size was used: Week 1) small (36.1 m2 per player); week 2) medium (72.0 m2 per player); week 3) large (108.8 m2 per player); and week 4) expansive (144.50 m2 per player). All players contested 12 maturity (mis)matched and 12 mixed maturity SSGs. Technical-tactical outcome measures were collected automatically using a foot-mounted device containing an inertial measurement unit (IMU) and the Game Technical Scoring Chart (GTSC) was used to subjectively quantify the technical performance of players. Passing data collected from the IMUs were used to construct passing networks. Mixed effect models were used with statistical inferences made using generalized likelihood ratio tests, accompanied by Cohen’s local f2 to quantify the effect magnitude of each independent variable (game type, pitch size and maturation). Consistent trends were identified with mean values for all passing network and coach-based scoring metrics indicating better performance and more effective collective behaviours for early compared with late maturation players. Network metrics established differences (f2 = 0.00 to 0.05) primarily for early maturation players indicating that they became more integral to passing and team dynamics when playing in a mixed-maturation team. However, coach-based scoring was unable to identify differences across bio-banding game types (f2 = 0.00 to 0.02). Pitch size had the largest effect on metrics captured at the team level (f2 = 0.24 to 0.27) with smaller pitch areas leading to increased technical actions. The results of this study suggest that the use of passing networks may provide additional insight into the effects of interventions such as bio-banding and that the number of early-maturing players should be considered when using mixed-maturity playing formats to help to minimize late-maturing players over-relying on their early-maturing counterparts during match-play.

Genetic coupling of life-history and aerobic performance in juvenile Atlantic salmon

1. The physiological underpinnings of life history adaptations in ectotherms are not well understood. Theories suggest energy metabolism influences life history variation via modulation of resource acquisition. However, the genetic basis of this relation and its dependence on ecological conditions, such as food availability, have rarely been characterized, despite being critical to predicting the responses of populations to environmental changes. 2. The Atlantic salmon (Salmo salar) is an emerging wild model species for addressing these questions; strong genetic determination of age-at-maturity at two unlinked genomic regions (vgll3 and six6) enables the use of complex experimental designs and tests of hypotheses on the physiological and genetic basis of life-history trait variation. 3. In this study, we crossed salmon to obtain individuals with all combinations of late and early maturation genotypes for vgll3 and six6 within full-sib families. Using more than 250 juveniles in common garden conditions, we tested (i) whether metabolic phenotypes (i.e., standard and maximum metabolic rates, and absolute aerobic scope) were correlated with the age-at-maturity genotypes and (ii) if high vs. low food availability modulated the relationship. 4. We found that salmon with vgll3 early maturation genotype had a higher aerobic scope and maximum metabolic rate, but not standard metabolic rate, compared to salmon with vgll3 late maturation genotype. This suggests that physiological or structural pathways regulating maximum oxygen supply or demand are potentially important for the determination of age-at-maturity in Atlantic salmon. 5. Vgll3 and six6 exhibited physiological epistasis, whereby maximum metabolic rate significantly decreased when late maturation genotypes were present concurrently in both loci compared to other genotype combinations. 6. The growth of the feed restricted group decreased substantially compared to the high food group. However, the effects of life-history genomic regions were similar in both feeding regimes, indicating a lack of genotype-by-environment interactions. 7. Our results indicate that aerobic performance of juvenile salmon may affect their age-at-maturity. The results may help to better understand the mechanistic basis of life-history variation, and the metabolic constrains on life-history evolution.

A tomato LATERAL ORGAN BOUNDARIES transcription factor, SlLOB1, predominantly regulates cell wall and softening components of ripening

Fruit softening is a key component of the irreversible ripening program, contributing to the palatability necessary for frugivore-mediated seed dispersal. The underlying textural changes are complex and result from cell wall remodeling and changes in both cell adhesion and turgor. While a number of transcription factors (TFs) that regulate ripening have been identified, these affect most canonical ripening-related physiological processes. Here, we show that a tomato fruit ripening–specific LATERAL ORGAN BOUNDRIES (LOB) TF, SlLOB1, up-regulates a suite of cell wall–associated genes during late maturation and ripening of locule and pericarp tissues. SlLOB1 repression in transgenic fruit impedes softening, while overexpression throughout the plant under the direction of the 35s promoter confers precocious induction of cell wall gene expression and premature softening. Transcript and protein levels of the wall-loosening protein EXPANSIN1 (EXP1) are strongly suppressed in SlLOB1 RNA interference lines, while EXP1 is induced in SlLOB1-overexpressing transgenic leaves and fruit. In contrast to the role of ethylene and previously characterized ripening TFs, which are comprehensive facilitators of ripening phenomena including softening, SlLOB1 participates in a regulatory subcircuit predominant to cell wall dynamics and softening.

Sexual Maturation in Farmed Atlantic Salmon (Salmo salar): A Review

The sexual maturation of Atlantic salmon Salmo salar is a multifactorial process in which fish acquire somatic characteristics to reproduce. In salmon farming has been described a high variability in the trait age at maturation derived from wild reproductive strategies. Early maturation is a phenotype that generates serious economic repercussions on both, sea cage and on land-based aquaculture systems. In view of the challenges of this problem for the global salmon farming industry, it is essential to thoroughly understand the influencing factors of early and late maturation to find efficient alternatives for managing the phenomenon. This review briefly describes sexual maturation in S. salar, its variability in cultures, and the factors influencing the maturation age trait at the physiological, genetic and environmental levels. The control of early maturity through changes to the natural photoperiod and through the use of genetic markers are discussed.

Who is the best surrogate for germ stem cell transplantation in fish?

Surrogate reproduction technology in fish has potential for aquaculture as well as endangered species preservation and propagation. Species with some unfavourable biological characteristics for culturing such as a late maturation or a large body size are ideal candidates for surrogate reproduction using smaller and faster-maturing host. One of the general prerequisites for the successful surrogacy and the pure donor-derived gamete production is the sterility of the host. Various sterilization methods have been developed and used in fish surrogacy; however, a direct comparison of available methods is missing. Such a knowledge gap hinders choice for the surrogate in various fish species, including those in high commercial demand such as tuna or sturgeons, where is a particular limitation from the point of the live material availability and difficulty to perform a high throughput assessment of different surrogates. Yet, large sturgeons or tuna species are one of the most prominent candidates for surrogacy. Zebrafish was utilized in this study as a model species to answer whether and to which extent different sterilization strategies can affect the surrogacy. Germ cell-depleted recipients (produced using knockdown of dead end gene), triploid recipients, and zebrafish x pearl danio hybrid recipients were tested as they represent the most frequently used types of surrogates. Spermatogonia isolated from vas::EGFP transgenic strain were intraperitoneally transplanted into swim-up 5-day old zebrafish. Transplantation success, survival, gonadal development, and reproductive output of the fish was analyzed. Germ cell-depleted recipients with empty gonads were identified as the most convenient among tested sterilization methods considering surrogacy induction success and reproductive output. The present study stands as significant aid for selecting suitable surrogates in various fish species.

Expansion of the genotypic variability in watermelon by physical mutagenesis

Purpose. Studies have been conducted on 18 promising watermelon genotypes to expand the genotypic variability of watermelon by induced mutagenesis. Materials and methods. Air-dried seeds were irradiated with a closed 60Co γ-source «Doslidnyk» (Department of Molecular and Medical Biophysics, Faculty of Radiophysics, Biomedical Electronics and Computer Systems, V.N. Karazin Kharkiv National University of MES of Ukraine). Results and discussion. Each of the most informative breeding traits was statistically analyzed for their expression patterns and levels by variants of mutagenic treatment (different doses - 150 Gy, 200 Gy, and 250 Gy) in each of the 18 genotypes. The patterns of influence of the irradiation doses on plant growth and development have been determined, both in individual genotypes and for the whole sample. It has been found that γ-irradiation had a depressing effect in the majority of genotypes (late maturation, long or short stems, altered order of the 1st female flower formation, extended phases of the growing period). Genotypes and their groups (clusters), in which expression of traits is opposite (alternative), have been identified. Sources of economically valuable traits have been identified, and the following effective doses of γ-irradiation have been established for genotypes (clusters): 4 genotypes of cluster 4 γ-irradiated at 250 Gy ‑ in breeding for yield capacity; 2 genotypes of cluster 3 γ-irradiated at 150 ‑ 250 Gy – in breeding for marketability; 3 genotypes of clusters 3 γ-irradiated at 150, 200 or 250 Gy – in breeding for large fruits: 1 genotype of cluster 5 γ-irradiated at 150, 200 or 250 Gy – in breeding for late maturation; 2 genotypes of cluster 3 γ-irradiated at 200 or 250 Gy and 5 genotypes of cluster 5 γ-irradiated at 150 or 200 Gy– in breeding for early maturation; 3 genotypes of cluster 3 γ-irradiated at 200 or 250 Gy and 7 genotypes of cluster 5 γ-irradiated at 150, 200 and especially 250 Gy – in breeding for long stems; and 1 genotype of cluster 1 γ-irradiated at 150, 200 or 250 Gy – in breeding for short stems

Structural basis for late maturation steps of the human mitoribosomal large subunit

Mitochondrial ribosomes (mitoribosomes) synthesize a critical set of proteins essential for oxidative phosphorylation. Therefore, mitoribosomal function is vital to the cellular energy supply. Mitoribosome biogenesis follows distinct molecular pathways that remain poorly understood. Here, we determine the cryo-EM structures of mitoribosomes isolated from human cell lines with either depleted or overexpressed mitoribosome assembly factor GTPBP5, allowing us to capture consecutive steps during mitoribosomal large subunit (mt-LSU) biogenesis. Our structures provide essential insights into the last steps of 16S rRNA folding, methylation and peptidyl transferase centre (PTC) completion, which require the coordinated action of nine assembly factors. We show that mammalian-specific MTERF4 contributes to the folding of 16S rRNA, allowing 16 S rRNA methylation by MRM2, while GTPBP5 and NSUN4 promote fine-tuning rRNA rearrangements leading to PTC formation. Moreover, our data reveal an unexpected involvement of the elongation factor mtEF-Tu in mt-LSU assembly, where mtEF-Tu interacts with GTPBP5, similar to its interaction with tRNA during translational elongation.

Acquisition of the physiological quality of peanut (Arachis hypogaea L.) seeds during maturation under the influence of the maternal environment

The scarcity of information on the maturation physiology of the peanut seed (Arachis hypogaea L.; Virgínia group) makes harvesting high quality seeds a challenge for the seed industry. During two consecutive crop seasons, we studied the acquisition of physiological quality of peanut seeds during maturation in tropical conditions. We bring new insights about the period of late maturation of seeds and the influence of the maternal environment on physiological quality. We monitored water content, dry weight, ability of germination, desiccation tolerance, vigor and longevity. In addition, we monitored temperature and precipitation throughout plant growth. We demonstrate that the physiological quality of peanut seeds is acquired during development, with a maximum between 57 and 76 days after flowering in the late stage of maturation. This final period represents about 25% of the development, considered the best time to harvest peanut seeds with the highest quality. Our findings also support the idea that the adequate proportion of rainfall and thermal sum in the maternal environment are factors that favor the acquisition of peanut seed longevity.

Nitrogen Fixation in Soybean Nodules Affects Seed Protein and Oil Contents: The Suggested Mechanism from the Coordinated Changes of Seed Chemical Compositions and Phosphoenolpyruvate Carboxylase Activity Caused by Different Types of Nitrogen Fertilizer

The contents of seed storage compounds, protein and oil, determine the best use of soybean seeds, namely materials for food processing and oil production. Genetic and environmental factors could affect the chemical compositions of soybean seeds. However, the mechanisms of how the accumulation of these primary seed compounds is regulated are mostly unclear. In this chapter, we describe the different effects of nodulation on the protein and oil contents in soybean seeds and the crucial role of phosphoenolpyruvate carboxylase (PEPC) in the protein accumulation of soybean seeds. Based on our previous studies on soybean seeds, we introduce five manners deduced; (1) protein accumulation is independent of oil accumulation, (2) nitrogen fixation results in decreasing oil amount per seed and decreased seed oil content, (3) a high pseudo negative correlation between protein and oil contents in seeds is likely to be observed under less nitrogen supply from the soil, (4) nitrogen absorbed from soil during the late growth stage promote seed production, (5) plant-type PEPC, ex. Gmppc2 in soybean could play a role in amino acid biosynthesis for storage protein accumulation in seeds during the late maturation period.