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17 pages, 2460 KiB  
Article
Wolbachia Natural Infection of Mosquitoes in French Guiana: Prevalence, Distribution, and Genotyping
by Emmanuelle Clervil, Amandine Guidez, Stanislas Talaga, Romuald Carinci, Pascal Gaborit, Anne Lavergne, Sourakhata Tirera and Jean-Bernard Duchemin
Microorganisms 2024, 12(10), 1994; https://doi.org/10.3390/microorganisms12101994 - 30 Sep 2024
Abstract
Wolbachia are the most spread bacterial endosymbionts in the world. These bacteria can manipulate host reproduction or block virus transmission in mosquitoes. For this reason, Wolbachia-based strategies for vector control are seriously considered or have already been applied in several countries around [...] Read more.
Wolbachia are the most spread bacterial endosymbionts in the world. These bacteria can manipulate host reproduction or block virus transmission in mosquitoes. For this reason, Wolbachia-based strategies for vector control are seriously considered or have already been applied in several countries around the world. In South America, Wolbachia have been studied in human pathogen vectors such as sand flies and mosquitoes. In French Guiana, the diversity and distribution of Wolbachia are not well known in mosquitoes. In this study, we screened for Wolbachia natural infection in mosquitoes in French Guiana by using 16S rRNA, Wolbachia surface protein (WSP), and multi-locus sequence typing (MLST) molecular assays. A total of 29 out of 44 (65.9%) mosquito species were positive for natural Wolbachia infection according to the PCR results, and two Wolbachia strains co-infected three specimens of Mansonia titillans. Then, we analyzed the phylogenetic relationships among the Wolbachia detected. All of the tested specimens of Aedes aegypti, the major dengue vector of French Guiana, were negative. These results regarding Wolbachia strain, distribution, and prevalence in mosquitoes from French Guiana highlight Wolbachia–mosquito associations and pave the way for a future Wolbachia-based strategy for vector control in this Amazonian territory. Full article
(This article belongs to the Special Issue Microbiota of Insect Vectors)
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18 pages, 2445 KiB  
Article
GPX5-Enriched Exosomes Improve Sperm Quality and Fertilization Ability
by Jian Huang, Shuangshuang Li, Yuxuan Yang, Chen Li, Zixi Zuo, Rong Zheng, Jin Chai and Siwen Jiang
Int. J. Mol. Sci. 2024, 25(19), 10569; https://doi.org/10.3390/ijms251910569 - 30 Sep 2024
Abstract
Semen preservation quality affects the artificial insemination success rate, and seminal exosomes are rich in various proteins that are transferable to sperm and conducive to sperm-function preservation during storage. However, the specific effects of these proteins remain unclear. In this study, the specific [...] Read more.
Semen preservation quality affects the artificial insemination success rate, and seminal exosomes are rich in various proteins that are transferable to sperm and conducive to sperm-function preservation during storage. However, the specific effects of these proteins remain unclear. In this study, the specific effects of these proteins on semen preservation quality and fertilization capacity were investigated through a proteomic analysis of seminal exosomes from boars with high conception rates (HCRs) and low conception rates (LCRs). The results revealed significant differences in the expression of 161 proteins between the two groups, with the GPX5 level being significantly higher in the HCR group (p < 0.05). The role of GPX5 was further investigated by constructing engineered exosomes enriched with GPX5 (Exo-GPX5), which could successfully transfer GPX5 to sperm. Compared to the control group, Exo-GPX5 could significantly improve sperm motility on storage days 4 and 5 and enhance the acrosome integrity on day 5 (p < 0.05). Additionally, Exo-GPX5 increased the total antioxidant capacity (T-AOC) of sperm, reduced the malondialdehyde (MDA) level, and decreased the expression of antioxidant proteins SOD1 and CAT (p < 0.05). In simulated fertilization experiments, Exo-GPX5-treated sperm exhibited higher capacitation ability and a significant increase in the acrosome reaction rate (p < 0.05). Overall, Exo-GPX5 can improve boar semen quality under 17 °C storage conditions and enhance sperm fertilization capacity. Full article
(This article belongs to the Section Molecular Biology)
19 pages, 8749 KiB  
Article
Hydrogel Dressing Biomaterial Enriched with Vitamin C: Synthesis and Characterization
by Piotr Szatkowski, Zuzanna Flis, Anna Ptak and Edyta Molik
Int. J. Mol. Sci. 2024, 25(19), 10565; https://doi.org/10.3390/ijms251910565 - 30 Sep 2024
Abstract
Materials engineering has become an important tool in the field of hydrogel dressings used to treat difficult-to-heal wounds. Hydrogels filled with bioactive substances used as a targeted healing system are worthy of attention. Vitamin C has healing and supporting effects in the treatment [...] Read more.
Materials engineering has become an important tool in the field of hydrogel dressings used to treat difficult-to-heal wounds. Hydrogels filled with bioactive substances used as a targeted healing system are worthy of attention. Vitamin C has healing and supporting effects in the treatment of many skin problems. The aim of the research was to produce a hydrogel biomaterial enriched with ascorbic acid for use as a dressing for difficult-to-heal wounds. A total of four different dressings were developed, each with different modifications in each layer. The dressing with vitamin C in the third layer was shown to release vitamin C ions more slowly than the dressing with vitamin C in the first layer. The studies conducted have shown that the dressings containing vitamin C have, among other things, a higher compressive strength, are characterised by a lower relative shortening after the application of force and shorten without damage at a lower force than in the case of a dressing without vitamin C. The dressings designed have a very good stability in the temperature range of 18 °C to 60 °C. It was found that the higher the vitamin C content in the dressing, the greater the increase in the specific heat value of the transformations. Therefore, hydrogel dressings containing vitamin C may be candidates for local delivery of vitamin C to the skin and protection of the wound area. Full article
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21 pages, 9778 KiB  
Article
Gonadal Development and Differentiation of Hybrid F1 Line of Ctenopharyngodon idella (♀) × Squaliobarbus curriculus (♂)
by Qiaolin Liu, Shitao Hu, Xiangbei Tang, Chong Wang, Le Yang, Tiaoyi Xiao and Baohong Xu
Int. J. Mol. Sci. 2024, 25(19), 10566; https://doi.org/10.3390/ijms251910566 - 30 Sep 2024
Abstract
The hybrid F1 offspring of Ctenopharyngodon idella (♂) and Squaliobarbus curriculus (♀) exhibit heterosis in disease resistance and also show abnormal sex differentiation. To understand the mechanism behind gonadal differentiation in the hybrid F1, we analyzed the transcriptomes of C. [...] Read more.
The hybrid F1 offspring of Ctenopharyngodon idella (♂) and Squaliobarbus curriculus (♀) exhibit heterosis in disease resistance and also show abnormal sex differentiation. To understand the mechanism behind gonadal differentiation in the hybrid F1, we analyzed the transcriptomes of C. idella, S. curriculus, and the hybrid F1; screened for genes related to gonad development in these samples; and measured their expression levels. Our results revealed that compared to either C. idella or S. curriculus, the gene expressions in most sub-pathways of the SNARE interactions in the vesicular transport pathway in the hypothalamus, pituitary, and gonadal tissues of their hybrid F1 offspring were significantly up-regulated. Furthermore, insufficient transcription of genes involved in oocyte meiosis may be the main reason for the insufficient reproductive ability of the hybrid F1 offspring. Through transcriptome screening, we identified key molecules involved in gonad development, including HSD3B7, HSD17B1, HSD17B3, HSD20B2, CYP17A2, CYP1B1, CYP2AA12, UGT2A1, UGT1A1, and FSHR, which showed significant differences in expression levels in the hypothalamus, pituitary, and gonads of these fish. Notably, the expression levels of UGT1A1 in the gonads of the hybrid F1 were significantly higher than those in C. idella and S. curriculus. These results provide a scientific basis for further research on the gonadal differentiation mechanism of hybrid F1 offspring. Full article
(This article belongs to the Special Issue Aquatic Biotechnology and Its Application in Genetic Breeding)
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30 pages, 4017 KiB  
Article
Identification of Homeobox Transcription Factors in a Dimorphic Fungus Talaromyces marneffei and Protein-Protein Interaction Prediction of RfeB
by Monsicha Pongpom, Nopawit Khamto, Panwarit Sukantamala, Thitisuda Kalawil and Tanaporn Wangsanut
J. Fungi 2024, 10(10), 687; https://doi.org/10.3390/jof10100687 - 30 Sep 2024
Abstract
Talaromyces marneffei is a thermally dimorphic fungus that can cause life-threatening systemic mycoses, particularly in immunocompromised individuals. Fungal homeobox transcription factors control various developmental processes, including the regulation of sexual reproduction, morphology, metabolism, and virulence. However, the function of homeobox proteins in T. [...] Read more.
Talaromyces marneffei is a thermally dimorphic fungus that can cause life-threatening systemic mycoses, particularly in immunocompromised individuals. Fungal homeobox transcription factors control various developmental processes, including the regulation of sexual reproduction, morphology, metabolism, and virulence. However, the function of homeobox proteins in T. marneffei has not been fully explored. Here, we searched the T. marneffei genome for the total homeobox transcription factors and predicted their biological relevance by performing gene expression analysis in different cell types, including conidia, mycelia, yeasts, and during phase transition. RfeB is selected for further computational analysis since (i) its transcripts were differentially expressed in different phases of T. marneffei, and (ii) this protein contains the highly conserved protein-protein interaction region (IR), which could be important for pathobiology and have therapeutic application. To assess the structure-function of the IR region, in silico alanine substitutions were performed at three-conserved IR residues (Asp276, Glu279, and Gln282) of RfeB, generating a triple RfeB mutated protein. Using 3D modeling and molecular dynamics simulations, we compared the protein complex formation of wild-type and mutated RfeB proteins with the putative partner candidate TmSwi5. Our results demonstrated that the mutated RfeB protein exhibited increased free binding energy, elevated protein compactness, and a reduced number of atomic contacts, suggesting disrupted protein stability and interaction. Notably, our model revealed that the IR residues primarily stabilized the RfeB binding sites located in the central region (CR). This computational approach for protein mutagenesis could provide a foundation for future experimental studies on the functional characterization of RfeB and other homeodomain-containing proteins in T. marneffei. Full article
(This article belongs to the Special Issue Current Trends in Mycological Research in Southeast Asia)
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18 pages, 610 KiB  
Article
Functional Properties and Sensory Quality of Kombucha Analogs Based on Herbal Infusions
by Marta Czarnowska-Kujawska, Joanna Klepacka, Małgorzata Starowicz and Patrycja Lesińska
Antioxidants 2024, 13(10), 1191; https://doi.org/10.3390/antiox13101191 - 30 Sep 2024
Abstract
Traditionally, kombucha is produced by the fermentation of black or green tea infusions with the use of SCOBY (Symbiotic Culture of Bacteria and Yeasts). However, SCOBY exhibits the ability to ferment other substrates as well, which can be used to create novel products [...] Read more.
Traditionally, kombucha is produced by the fermentation of black or green tea infusions with the use of SCOBY (Symbiotic Culture of Bacteria and Yeasts). However, SCOBY exhibits the ability to ferment other substrates as well, which can be used to create novel products with new sensory and health-promoting properties. This paper investigates the antioxidant activity, chemical composition, and sensory properties of mint, nettle, and blackcurrant leaf-based kombucha analogs. It has been demonstrated that the fermentation process with SCOBY significantly influenced (p ≤ 0.05) sugar, organic acids, and mineral contents, with the increase in iron, magnesium, and calcium amounts in all tested herbal kombucha. The study shows that the type of herb infusion has a significant influence on the parameters associated with antioxidant potential. The fermentation with SCOBY resulted in an increase in antioxidant activity as measured by the superoxide anion radical (O2•−) inhibition of all three tested herbal infusions, with the greatest changes observed in nettle kombucha. Herbal kombucha was characterized by significantly increased total phenolic content as determined by Folin’s reagent and a changed phenolic compound profile by LC-MS/MS (liquid chromatography with tandem mass spectrometry) in comparison to nonfermented infusions. Very high sensory scores were achieved for fermented mint and blackcurrant-based kombucha. Full article
(This article belongs to the Special Issue The Antioxidants in Fermented Foods)
16 pages, 531 KiB  
Systematic Review
The Association of a Vegan Diet during Pregnancy with Maternal and Child Outcomes: A Systematic Review
by Deidre Meulenbroeks, Eline Otten, Sophie Smeets, Luuk Groeneveld, Daisy Jonkers, Simone Eussen, Hubertina Scheepers and Jessica Gubbels
Nutrients 2024, 16(19), 3329; https://doi.org/10.3390/nu16193329 - 30 Sep 2024
Abstract
Background: With the increasing prevalence of pregnant women adhering to a vegan diet, gaining insight into their nutritional intake and its association with maternal and fetal outcomes is essential to providing recommendations and developing guidelines for general practice. Methods: Following the Preferred Reporting [...] Read more.
Background: With the increasing prevalence of pregnant women adhering to a vegan diet, gaining insight into their nutritional intake and its association with maternal and fetal outcomes is essential to providing recommendations and developing guidelines for general practice. Methods: Following the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines, a systematic review of the available scientific literature in Medline, Embase, and Cochrane was conducted in January 2024. Results: The titles and abstracts of 2211 unique articles were screened. Only six studies were eligible for inclusion and assessed for methodological quality using the (National Institutes of Health Study Quality (NIHSQ) Assessment Tool. The intake of protein and various micronutrients was significantly lower among vegan pregnant women compared to omnivorous women. Vitamin B12 supplements seemed sufficient in optimizing maternal and umbilical cord vitamin B12 levels amongst vegan mothers. Further, women on a vegan diet less often showed excessive pregnancy weight gain. However, children from women on a vegan diet had a significantly lower birth weight than those from women on an omnivorous diet. Conclusion: So far, only a few studies, with a large diversity of (assessment of) outcomes and insufficient power, have been published on this topic, limiting our ability to make firm conclusions about the effects of a vegan diet during pregnancy on maternal and fetal outcomes. Full article
(This article belongs to the Section Nutrition in Women)
26 pages, 4277 KiB  
Article
Genome-Wide Association Study on Body Conformation Traits in Xinjiang Brown Cattle
by Menghua Zhang, Yachun Wang, Qiuming Chen, Dan Wang, Xiaoxue Zhang, Xixia Huang and Lei Xu
Int. J. Mol. Sci. 2024, 25(19), 10557; https://doi.org/10.3390/ijms251910557 - 30 Sep 2024
Abstract
Body conformation traits are linked to the health, longevity, reproductivity, and production performance of cattle. These traits are also crucial for herd selection and developing new breeds. This study utilized pedigree information and phenotypic (1185 records) and genomic (The resequencing of 496 Xinjiang [...] Read more.
Body conformation traits are linked to the health, longevity, reproductivity, and production performance of cattle. These traits are also crucial for herd selection and developing new breeds. This study utilized pedigree information and phenotypic (1185 records) and genomic (The resequencing of 496 Xinjiang Brown cattle generated approximately 74.9 billion reads.) data of Xinjiang Brown cattle to estimate the genetic parameters, perform factor analysis, and conduct a genome-wide association study (GWAS) for these traits. Our results indicated that most traits exhibit moderate to high heritability. The principal factors, which explained 59.12% of the total variance, effectively represented body frame, muscularity, rump, feet and legs, and mammary system traits. Their heritability estimates range from 0.17 to 0.73, with genetic correlations ranging from −0.53 to 0.33. The GWAS identified 102 significant SNPs associated with 12 body conformation traits. A few of the SNPs were located near previously reported genes and quantitative trait loci (QTLs), while others were novel. The key candidate genes such as LCORL, NCAPG, and FAM184B were annotated within 500 Kb upstream and downstream of the significant SNPs. Therefore, factor analysis can be used to simplify multidimensional conformation traits into new variables, thus reducing the computational burden. The identified candidate genes from GWAS can be incorporated into the genomic selection of Xinjiang Brown cattle, enhancing the reliability of breeding programs. Full article
20 pages, 1053 KiB  
Article
Which Fish Predators Can Tell Us the Most about Changes in the Ecosystem of the Pomeranian Bay in the Southwest Baltic Proper?
by Jarosław Dąbrowski, Beata Więcaszek, Adam Brysiewicz and Przemysław Czerniejewski
Water 2024, 16(19), 2788; https://doi.org/10.3390/w16192788 - 30 Sep 2024
Abstract
The results of our preliminary studies indicated that the diets of predatory fishes can be bioindicators of faunistic changes in ecosystems and indirectly of changes taking place in aquatic environments in the Pomeranian Bay. We examined the diet composition of top predators Gadus [...] Read more.
The results of our preliminary studies indicated that the diets of predatory fishes can be bioindicators of faunistic changes in ecosystems and indirectly of changes taking place in aquatic environments in the Pomeranian Bay. We examined the diet composition of top predators Gadus morhua, Sander lucioperca, Perca fluviatilis, and the mesopredator Neogobius melanostomus. The diet composition of the perch, pikeperch, and round goby in the Pomeranian Bay was analyzed for the first time. Our findings indicated that perch, an euryphagous species, is the best potential bioindicator because it is present in the area studied most of the year and has a low to moderate feeding index (FI). Baltic cod, also an euryphagous species, could be a good bioindicator in the areas where it is abundant and occurs frequently, but not in the Pomeranian Bay, where it is caught mainly in the fall. Round goby, which is present in the area studied and had a low FI, is a stenophagous species that preys mainly on benthic species, while pikeperch had a very high FI and the least number of prey species in its diet. The results of trophic interaction analysis among the predators analyzed and their non-native/invasive prey are also provided. Full article
(This article belongs to the Section Oceans and Coastal Zones)
30 pages, 2349 KiB  
Article
On a Symmetry-Based Structural Deterministic Fractal Fractional Order Mathematical Model to Investigate Conjunctivitis Adenovirus Disease
by Mdi Begum Jeelani and Nadiyah Hussain Alharthi
Symmetry 2024, 16(10), 1284; https://doi.org/10.3390/sym16101284 - 30 Sep 2024
Abstract
In the last few years, the conjunctivitis adenovirus disease has been investigated by using the concept of mathematical models. Hence, researchers have presented some mathematical models of the mentioned disease by using classical and fractional order derivatives. A complementary method involves analyzing the [...] Read more.
In the last few years, the conjunctivitis adenovirus disease has been investigated by using the concept of mathematical models. Hence, researchers have presented some mathematical models of the mentioned disease by using classical and fractional order derivatives. A complementary method involves analyzing the system of fractal fractional order equations by considering the set of symmetries of its solutions. By characterizing structures that relate to the fundamental dynamics of biological systems, symmetries offer a potent notion for the creation of mechanistic models. This study investigates a novel mathematical model for conjunctivitis adenovirus disease. Conjunctivitis is an infection in the eye that is caused by adenovirus, also known as pink eye disease. Adenovirus is a common virus that affects the eye’s mucosa. Infectious conjunctivitis is most common eye disease on the planet, impacting individuals across all age groups and demographics. We have formulated a model to investigate the transmission of the aforesaid disease and the impact of vaccination on its dynamics. Also, using mathematical analysis, the percentage of a population which needs vaccination to prevent the spreading of the mentioned disease can be investigated. Fractal fractional derivatives have been widely used in the last few years to study different infectious disease models. Hence, being inspired by the importance of fractal fractional theory to investigate the mentioned human eye-related disease, we derived some adequate results for the above model, including equilibrium points, reproductive number, and sensitivity analysis. Furthermore, by utilizing fixed point theory and numerical techniques, adequate requirements were established for the existence theory, Ulam–Hyers stability, and approximate solutions. We used nonlinear functional analysis and fixed point theory for the qualitative theory. We have graphically simulated the outcomes for several fractal fractional order levels using the numerical method. Full article
(This article belongs to the Section Mathematics)
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16 pages, 273 KiB  
Review
The Concept of Agency, Animal Wellbeing, and the Practical Realities of Ex Situ Breeding Programs in Zoos and Aquariums
by Max Norman and Sabrina Brando
J. Zool. Bot. Gard. 2024, 5(4), 563-578; https://doi.org/10.3390/jzbg5040038 - 30 Sep 2024
Abstract
Conservation and animal wellbeing are two key goals of the modern zoo and aquarium. In the case of ex situ conservation breeding programs, there is a unique paradox between these concepts; on some occasions, facilities must balance and mitigate arising conflicts between the [...] Read more.
Conservation and animal wellbeing are two key goals of the modern zoo and aquarium. In the case of ex situ conservation breeding programs, there is a unique paradox between these concepts; on some occasions, facilities must balance and mitigate arising conflicts between the wellbeing of animals with the goals of the conservation project. Exerting control over the reproductive lives of animals—choosing when and where they breed, whom they breed with, whether breeding is prohibited altogether, and so on—results in an inherent reduction in the animal’s agency. Considering the growing recognition that providing choice and control to animals enhances wellbeing, it is essential to examine how populations and their breeding are managed. The present review presents challenges in supporting agency for animals bred ex situ by thoroughly exploring the practical realities of working with these animals. Various challenges and areas of consideration, including current research directions, suggestions for future practices, and opportunities moving forward, are highlighted. The importance of careful population management in maximising wellbeing, including the inherent dichotomy of the necessity to limit some reproductive autonomy to preserve animal wellbeing while meeting the needs of breeding programs. Full article
12 pages, 3787 KiB  
Article
The Multifaceted Botanical Impact of the Invasive Common Milkweed (Asclepias syriaca L.) in a Protected Sandy Grassland in Central Europe
by Sarolta Meinhardt, Dénes Saláta, Eszter Tormáné Kovács, Örs Ábrám, Edina Morvai, Orsolya Szirmai and Szilárd Czóbel
Land 2024, 13(10), 1594; https://doi.org/10.3390/land13101594 - 30 Sep 2024
Abstract
Asclepias syriaca L.is a perennial broad-leaved species native to North America. It has become established in many regions of Europe, and has spread with increasing rapidity in recent decades. Its reproductive behaviour allows this species to proliferate rapidly. The selected grasslands are located [...] Read more.
Asclepias syriaca L.is a perennial broad-leaved species native to North America. It has become established in many regions of Europe, and has spread with increasing rapidity in recent decades. Its reproductive behaviour allows this species to proliferate rapidly. The selected grasslands are located in the Carpathian Basin in Hungary, in the area of Kiskunság National Park, near Lake Kolon. In the framework of the research, in two consecutive years (2021 and 2022), and in two different seasons (spring and autumn), we examined the percentage cover of vascular plant species in the stands degraded by A. syriaca and the natural control (without A. syriaca), and their seasonal and interannual dynamics. Between the A. syriaca-degraded and natural control stands, there was no significant difference in the number of species in the spring and autumn of any of the examined years. Surprisingly, in the spring, the degraded stands were somewhat richer in vascular plant species. In autumn, the control stands had more vascular plant species, but to a lesser extent. The Shannon diversity was higher in the A. syriaca-dominated stands than in the control in all recording periods. Simpson diversity showed a similar pattern to Shannon diversity, with one exception in spring 2022. In the case of the social behaviour type, it can be clearly seen that the alien competitor (AC) species dominated in spring and autumn in both years in the stand dominated by A. syriaca. In the natural control stand, specialists (S) and competitors (C) dominated in both years and in both seasons. The negative effect of the invasive species on the number and diversity of species was presumably significantly reduced by the significant drying of the study area experienced in recent years. Full article
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14 pages, 2384 KiB  
Article
Effects of Cryptorchidism on the Semen Quality of Giant Pandas from the Perspective of Seminal Plasma Proteomics
by Yicheng Qian, Yuliang Liu, Tao Wang, Shenfei Wang, Jiasong Chen, Feiping Li, Mengshi Zhang, Xianbiao Hu, Juan Wang, Yan Li, Ayala James, Rong Hou and Kailai Cai
Genes 2024, 15(10), 1288; https://doi.org/10.3390/genes15101288 - 30 Sep 2024
Abstract
Giant pandas are an endangered species with low reproductive rates. Cryptorchidism, which can negatively affect reproduction, is also often found in pandas. Seminal plasma plays a crucial role in sperm–environment interactions, and its properties are closely linked to conception potential in both natural [...] Read more.
Giant pandas are an endangered species with low reproductive rates. Cryptorchidism, which can negatively affect reproduction, is also often found in pandas. Seminal plasma plays a crucial role in sperm–environment interactions, and its properties are closely linked to conception potential in both natural and assisted reproduction. The research sought to identify seminal fluid protein content variations between normal and cryptorchid giant pandas. Methods: Using a label-free MS-based method, the semen proteomes of one panda with cryptorchidism and three normal pandas were studied, and the identified proteins were compared and functionally analyzed. Results: Mass spectrometry identified 2059 seminal plasma proteins, with 361 differentially expressed proteins (DEPs). Gene ontology (GO) analysis revealed that these DEPs are mainly involved in the phosphate-containing compound metabolic, hydrolase activity, and kinase activity areas (p ≤ 0.05). The KEGG functional enrichment analysis revealed that the top 20 pathways were notably concentrated in the adipocyte lipolysis and insulin metabolism pathway, with a significance level of p ≤ 0.05. Further analysis through a protein–protein interaction (PPI) network identified nine key proteins that may play crucial roles, including D2GXH8 (hexokinase Fragment), D2HSQ6 (protein tyrosine phosphatase), and G1LHZ6 (Calmodulin 2). Conclusions: We suspect that the high abundance of D2HSQ6 in cryptorchid individuals is associated with metabolic pathways, especially the insulin signal pathway, as a typical proteomic feature related to its pathological features. These findings offer insight into the ex situ breeding conditions of this threatened species. Full article
(This article belongs to the Section Animal Genetics and Genomics)
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12 pages, 2597 KiB  
Article
Identification and Characterization of Germ Cell Genes Vasa and Nanos-2 in the Ovary and Testis of White Crappie (Pomoxis annularis) and the Ovary of Black Crappie (P. nigromaculatus)
by Sujan Bhattarai, Nilima N. Renukdas, Anita M. Kelly, Amit Kumar Sinha, Sanjay Joshi and Dayan A. Perera
Fishes 2024, 9(10), 394; https://doi.org/10.3390/fishes9100394 - 30 Sep 2024
Abstract
The vasa gene, encoding an ATP-dependent RNA helicase, and the nanos-2 gene, an RNA-binding protein, are essential for germ cell origination, migration, maintenance, and development in vertebrates and invertebrates. The expression levels of the vasa and nanos-2 genes have not yet been investigated [...] Read more.
The vasa gene, encoding an ATP-dependent RNA helicase, and the nanos-2 gene, an RNA-binding protein, are essential for germ cell origination, migration, maintenance, and development in vertebrates and invertebrates. The expression levels of the vasa and nanos-2 genes have not yet been investigated or reported in crappie species. These two genes were partially sequenced and characterized, and their expression patterns were analyzed using reverse-transcription quantitative polymerase chain reaction (RT-qPCR) according to age and sex. The vasa sequences of white crappie (WC) females and males showed significant similarity with the vasa homologs of largemouth bass (Micropterus salmoides; 93.1–93.98%) and smallmouth bass (M. dolomieu; 91.95–92.77%), indicating its conserved nature within the Family Centrarchidae. The vasa sequence of black crappie (BC) females showed significant similarity with the vasa homologs of white crappie (91.67%), largemouth bass (96.10%), smallmouth bass (96.10%), spotted scat (Scatophagus argus; 97.37%), mandarin fish (Siniperca chutasi; 96.15%), Japanese sea bass (Lateolabrax japonicus; 94.87%), lumpfish (Cyclopterus lumpus; 91.95%), southern bluefin tuna (Thunnus maccoyii; 94.74%), large yellow croaker (Larimichthys crocea; 92.21%), and Nile tilapia (Oreochromis niloticus; 92.21%). The nanos-2 sequences of WC females, WC males, and BC females showed significant similarity with the nanos-2 of largemouth bass (92.92–96.36%), smallmouth bass (92.92–96.36%), and mandarin fish (92.66–94.34%). The expression of vasa in BC females was significantly higher at age-2 than at age-1, while WC males and females presented no significant age-related differences. Neither species had a significant difference in nanos-2 gene expression with age. The expression levels of vasa and nanos-2 were significantly higher in WC males than females. Full article
(This article belongs to the Section Genetics and Biotechnology)
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20 pages, 1340 KiB  
Article
Eco-Physiological and Genetic Basis of Drought Response Index in Rice—Integration Using a Temperate Japonica Mapping Population
by Poornima Ramalingam, An Thi Ha Nguyen and Akihiko Kamoshita
Agronomy 2024, 14(10), 2256; https://doi.org/10.3390/agronomy14102256 - 29 Sep 2024
Abstract
The drought response index (DRI) is an indicator of drought tolerance after adjustment for variation in flowering date and potential yield under well-watered conditions. Using a temperate japonica mapping population of 97 recombinant inbred lines from a cross between Otomemochi (OTM) and Yumenohatamochi [...] Read more.
The drought response index (DRI) is an indicator of drought tolerance after adjustment for variation in flowering date and potential yield under well-watered conditions. Using a temperate japonica mapping population of 97 recombinant inbred lines from a cross between Otomemochi (OTM) and Yumenohatamochi (YHM), we evaluated DRI during the reproductive stage under very severe drought in one year and under severe drought in the next year. DRI under very severe drought (−6.4 to 15.9) and severe drought (−3.9 to 8.3) positively correlated with grain dry weight under drought. Three QTLs for DRI were identified: RM3703–RM6911–RM6379 and RM6733–RM3850 both on chromosome 2 in both years combined; and RM8120–RM2615–RM7023 on chromosome 6 in the second year. The latter collocated with putative genes for signaling and defense mechanisms (e.g., PIN1B, BZIP46) revealed by database analysis. Top DRI lines retained root dry weight and had bigger steles. QTL-by-environment interaction had a greater relative contribution than the main effects of QTLs. Comparison with three previous studies revealed that the QTLs for DRI were unique to each experiment and/or population; most of them closely colocalized with reported drought-yield QTLs. Full article
(This article belongs to the Topic Crop Ecophysiology: From Lab to Field, 2nd Volume)
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