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Abscisic acid (ABA) regulates plant development, seed germination, and stress responses. The PYR1-like (PYL) proteins are essential for ABA signalling. However, the evolution and expression of PYL genes in potato (Solanum tuberosum) remain poorly understood. Here, we analysed and identified 17 PYL genes in the potato genome, which were categorised into three groups based on phylogenetic analysis. These genes are distributed across nine chromosomes with predicted proteins subcellar localisation primarily in the cytoplasm. These StPYLs revealed conserved exon structures and domains among the groups. Promoter region analysis indicated hormone and stress-related elements in all StPYL s. Protein–protein interactions and microRNA networks predicted that the interactions of StPYLs are crucial components of ABA signalling, underlining their pivotal role in stress management and growth regulation in potato. Expression profiling across different tissues and under various stresses revealed their varied expression pattern. Further, we validated the expression pattern of selected StPYLs through reverse transcription quantitative PCR under drought, salt, and Phytophthora infestans stresses. This revealed consistent upregulation of StPYL6 in these stresses, while StPYL11 exhibited significant downregulation over time. Other genes showed downregulation under drought and salt stresses while upregulation under P. infestans. Overall, our results suggested the potential role of PYL genes in abiotic and biotic stresses. Abscisic acid (ABA) is a key player in how plants adapt to their environment, from growth to coping with stress. In this study, we identified the PYL genes in potatoes (Solanum tuberosum), crucial for ABA signalling pathways, yet poorly understood in potato. We uncover 17 PYL genes in potatoes, revealing their diverse roles in stress response and growth regulation. These findings shed light on potential role of PYL genes in mitigating the multiple stresses. This article belongs to the Collection Functional Genomics for Developing Climate Resilient Crops. [ABSTRACT FROM AUTHOR]

To elucidate the characteristic taste distinctions between Shitougan and other citrus species, the primary taste-contributing substances in the juice sac, segment membrane, albedo and epicarp of 9 citrus varieties, including Shitougan citrus, were analyzed. Our findings revealed that the distribution patterns and concentrations of sugars, organic acids, flavonoids and triterpenoids in different tissues determined the taste profiles of various citrus species. The outer tissues of citrus fruits were identified as the principal sites for accumulation of sugars, organic acids, flavonoids, and triterpenes. Notably, amino acids, such as arginine (Arg), glutamate (Glu), histidine (His), alanine (Ala), aspartic acid (Asp), and proline (Pro), played a pivotal role in shaping the overall taste characteristics of these citrus species. In particular reference to Shitougan fruit - its main edible components comprising juice sacs and segment membranes exhibited relatively lower levels of sugars and organic acids; however higher contents of naringin and neohesperidin were detected in four other tissues within Shitougan fruit. Furthermore, principal component analysis (PCA) indicated that naringin and neohesperidin were primarily responsible for conferring a unique bitter taste to Shitougan fruit. These comprehensive results effectively bridge existing knowledge gaps pertaining to taste-contributing substances specific to Shitougan fruit while simultaneously providing a solid theoretical foundation for further exploration into molecular mechanisms underlying important flavor-imparting constituents within this variety. [ABSTRACT FROM AUTHOR]

Many studies have shown that multidrug and toxic compound extrusion (MATE) is a new secondary transporter family that plays a key role in secondary metabolite transport, the transport of plant hormones and disease resistance in plants. However, detailed information on this family in Gleditsia sinensis has not yet been reported. In the present study, a total of 45 GsMATE protein members were identified and analysed in detail, including with gene classification, phylogenetic evaluation and conserved motif determination. Phylogenetic analysis showed that GsMATE proteins were divided into six subfamilies. Additionally, in order to understand these members' regulatory roles in growth and development in G. sinensis, the GsMATEs expression profiles in different tissues and different developmental stages of thorn were examined in transcriptome data. The results of this study demonstrated that the expression of all MATE genes varies in roots, stems and leaves. Notably, the expression levels of GsMATE26, GsMATE32 and GsMATE43 differ most in the early stages of thorn development, peaking at higher levels than in later stages. Our results provide a foundation for further functional characterisation of this important class of transporter family in G. sinensis. [ABSTRACT FROM AUTHOR]

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[Objective] BBX (B-Box), as one of the subfamilies of zinc finger transcription factors, is widely involved in the plant growth and development process. To reveal the genetic characteristics and potential functions of the kiwifruit BBX family. [Method] The kiwifruit BBX gene family was identified at the whole genome level. And the protein physicochemical properties, subcellular localizations, systemic developmental characteristics, conserved protein domains, and homologous characteristics were analyzed. Meanwhile, the expression patterns in different tissues and different storage treatments were analyzed. [Result] A total of 48 AcBBX genes were unevenly distributed across 22 chromosomes. The amino acid length of AcBBXs was 126-515 aa, protein molecular weight was 14 172.09-57 905.84 Da, and four subcellular localizations were predicted. There were 0 to 4 introns in AcBBX family. AcBBX promoters contained various cis-acting elements involved in light responsiveness, plant hormone regulatory, biotic and abiotic stress regulatory, growth and development regulatory. Combined the evolutionary tree with conserved domains, they could be clustered into five groups, and gene tandem duplication and fragment replication were the main reasons for the expansion of family members. The expressions of AcBBXs varied in different organs of kiwifruit. Seven AcBBX members had higher expressions in the mature fruits compared to other parts, 3 members having higher expressions in the young fruits, 7 members having higher expressions in the leaves, and 3 members having higher expressions in the flowers. During the post-harvest storage of fruits, 3 members were upregulated by exogenous hormones and higher than other processing groups, while 6 members were upregulated after one week of storage at room temperature and higher than other processing groups. During 4℃ storage of fruits, 10 members were upregulated, while 5 members were downregulated. [Conclusion] This study reveals the transcriptional characteristics of different members of the kiwifruit AcBBX family during its growth, development, and post-harvest storages, laying the foundation for subsequent functional verification of the AcBBX gene. [ABSTRACT FROM AUTHOR]

Class III peroxidases are plant-specific and play a key role in the response to biotic and abiotic stresses, as well as in plant growth and development. In this study, we investigated 60 POD genes from Prunus persica based on genomic and transcriptomic data available in NCBI and analysed the expression of individual genes with qPCR. Peroxidase genes were clustered into five subgroups using the phylogenetic analysis. Their exon–intron structure and conserved motifs were analysed. Analysis of the transcriptomic data showed that the expression of PpPOD genes varied significantly in different tissues, at different developmental stages and under different stress treatments. All genes were divided into low- and high-expressed genes, and the most highly expressed genes were identified for individual tissues (PpPOD12 and PpPOD42 in flower buds and PpPOD73, PpPOD12, PpPOD42, and PpPOD31 in fruits). The relationship between cold tolerance and the level of peroxidase expression was revealed. These studies were carried out for the first time in the peach and confirmed that chilling tolerance may be related to the specificity of antioxidant complex gene expression. [ABSTRACT FROM AUTHOR]

Copyright of Journal of Food Safety & Quality is the property of Journal of Food Safety & Quality Editorial Department and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

In order to understand the diversity of endophytic bacteria community in different tissues of Pyracantha fortuneana, the 16S rRNA V5-V7 variable region of endophytic bacteria in P. fortuneana was sequenced by high-throughput sequencing technology, and the diversity of endophytic bacteria community in different tissue parts of P. fortuneana was analyzed. The results were as follows: (1) A total of 1 818 endophytic bacteria OTU were obtained, in which 754 endophytic bacteria were from root, 308 from stem and 756 from leaf, and with a total of 152 OTU. (2) Species classification showed that endophytic bacteria in different P. fortuneana tissues had abundant community diversities, and the endophytic bacteria in root belonged to 557 species, 373 genera, 216 families, 137 orders, 53 classes, 23 phyla, Allorhizobium-Neorhizobium-Pararhizobium-Rhizobium and Streptomyces were the dominant genera, and their relative abundance was 10.57% and 8.00%, respectively. The endophytic bacteria in stem belonged to 270 species, 204 genera, 126 families, 76 orders, 32 classes, 21 phyla, Massilia and unclassified_f_Comamonadaceae were the dominant genera, and their relative abundance was 31.10% and 12.82%, respectively. The endophytic bacteria in leaf belonged to 581 species, 380 genera, 210 families, 130 orders, 52 classes, 21 phyla, Geobacillus and Pseudomonas were the dominant genera, and their relative abundance was 12.31% and 9.84%, respectively. (3) PICRUSt function prediction analysis showed that the species richness of root endophytic bacteria involved in te regulation of various metabolic pathways was the highest. These results provide a reference for endophytic bacteria functions and exploiting new beneficial microbial resources.

This study investigated the influence of salinity and Cd concentration on the accumulation and depuration of Cd in different tissues of tilapia. Following Cd exposure for 30 days, high Cd concentration significantly inhibited the fish growth. Cd accumulation in the fish was tissue-specific and dose-dependent with the greatest Cd accumulation in the liver, followed by the gill, scale and edible muscle except for 0.5 mg/L Cd in combination with high salinity. The bioaccumulation factors (BAFs) of Cd in the different tissues of the fish were influenced by three factors (time, toxicity levels and salinity of exposure), with the greatest BAFs in the liver in all cases. The depuration kinetics showed the ability of tilapia to eliminate Cd and the influence of salinity on the elimination varied according to tissues. Moderate salinity promoted the depuration of Cd in the tissues except for edible muscle. Among the four tissues, edible muscle showed the highest elimination rates (ER), ranging from 76.7% to 81.9% with varied salinities. These results suggest that Cd accumulation and depuration of tilapia are complex processes that are influenced by several factors. This knowledge may expedite more accurate risk assessment of heavy metals. [ABSTRACT FROM AUTHOR]

In order to understand the diversity of endophytic bacteria community in different tissues of Pyracantha fortuneana, the 16S rRNA V5-V7 variable region of endophytic bacteria in P. fortuneana was sequenced by high-throughput sequencing technology, and the diversity of endophytic bacteria community in different tissue parts of P. fortuneana was analyzed. The results were as follows:(1) A total of 1 818 endophytic bacteria OTU were obtained, in which 754 endophytic bacteria were from root, 308 from stem and 756 from leaf, and with a total of 152 OTU.(2) Species classification showed that endophytic bacteria in different P. fortuneana tissues had abundant community diversities, and the endophytic bacteria in root belonged to 557 species, 373 genera, 216 families, 137 orders, 53 classes, 23 phyla, Allorhizobium-Neorhizobium-Pararhizobium-Rhizobium and Streptomyces were the dominant genera, and their relative abundance was 10.57% and 8.00%, respectively. The endophytic bacteria in stem belonged to 270 species, 204 genera, 126 families, 76 orders, 32 classes, 21 phyla, Massilia and unclassified_f_Comamonadaceae were the dominant genera, and their relative abundance was 31.10% and 12.82%, respectively. The endophytic bacteria in leaf belonged to 581 species, 380 genera, 210 families, 130 orders, 52 classes, 21 phyla, geobacillus and pseudomonas were the dominant genera, and their relative abundance was 12.31% and 9.84%, respectively.(3)PICRUSt function prediction analysis showed that the species richness of root endophytic bacteria involved in te regulation of various metabolic pathways was the highest. These results provide a reference for endophytic bacteria functions and exploiting new beneficial microbial resources. [ABSTRACT FROM AUTHOR]

Class III peroxidases are plant-specific and play a key role in the response to biotic and abiotic stresses, as well as in plant growth and development. In this study, we investigated 60 POD genes from Prunus persica based on genomic and transcriptomic data available in NCBI and analysed the expression of individual genes with qPCR. Peroxidase genes were clustered into five subgroups using the phylogenetic analysis. Their exon–intron structure and conserved motifs were analysed. Analysis of the transcriptomic data showed that the expression of PpPOD genes varied significantly in different tissues, at different developmental stages and under different stress treatments. All genes were divided into low- and high-expressed genes, and the most highly expressed genes were identified for individual tissues (PpPOD12 and PpPOD42 in flower buds and PpPOD73, PpPOD12, PpPOD42, and PpPOD31 in fruits). The relationship between cold tolerance and the level of peroxidase expression was revealed. These studies were carried out for the first time in the peach and confirmed that chilling tolerance may be related to the specificity of antioxidant complex gene expression.

【Objective】The study aimed to explore the bacterial community and diversity among the different tissues and rhizosphere soil of Dracocephalum tanguticum.【Method】The high throughput sequencing technology was use to sequence the region V5-V7 of endophytic and rhizosphere bacteria 16S rRNA gene from D. tanguticum, and the community composition and diversity were analyzed by bioinformatics. 【Result】A total of 2351 OTUs were obtained, which individually belonged to 570 genera, 319 families, 191 orders, 76 classes and 29 phyla, and the diversity index of DtS was significantly the highest, while that was the lowest in the DtR; Actinobacteriota and Proteobacteria were the dominant phyla in all samples of D. tanguticum; Bacillus and Solirubrobacter were the dominant genera in DtS and DtL, Solirubrobacter and Actinoplanes were the dominant genera in the DtR, while Solirubrobacter and Gaiella were the dominant genera in the DtRS; It could be seen that bacterial community composition of DtS was more similar with DtL, bacterial community composition of DtR and DtRS were more similar. PICRUSt function prediction analysis showed that the function of bacteria in different tissues and rhizosphere soil of D. tanguticum were mainly involved in the biosynthesis of flavonoids, flavonoid glycosides and terpenes etc.【Conclusion】The bacteria in different tissues and rhizosphere soil of D. tanguticum had rich community and functional diversity, and some of the dominant bacteria had potential functional value, which provided a theoretical basis for the development and utilization of beneficial microbial resources of D. tanguticum. [ABSTRACT FROM AUTHOR]

Lemon fruits have a non-uniform histological structure, and are characterized by abundant volatile compounds. However, the distribution of volatile compounds in different tissues remain unknown. Herein, electronic nose (E-nose) and headspace solid-phase microextraction coupled with gas chromatography-mass spectrometry (HS-SPME-GC-MS) were employed to qualitatively and quantitatively analyze the volatile compound content in different tissues of fresh lemon fruits, while their microstructures were observed using several microscopy methods. The numbers of volatile compounds detected in the flavedo, albedo, juice vesicles, and segment wall were 41, 23, 29, and 19, respectively. The volatile compounds detected in the four tissues were mainly alkenes, alcohols, aldehydes, esters, and ketones, with a significant descending order in the total content (p

Copyright of Journal of Agricultural Science & Technology (1008-0864) is the property of Journal of Agricultural Science & Technology and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Lonicera japonica Thunb. (LJT) has been widely used as medicines or food additives in Asian countries for thousands of years. The flower buds are often medicinally used, and the other tissues are ignored. However, flowers, leaves and stems have also been reported to have antimicrobial, anti-inflammatory and antioxidant effects. In the current study, un-targeted metabolomics analysis was performed to investigate the metabolic difference among different tissues (flowers, flower buds, stems and leaves) of LJT based on liquid chromatography with mass spectrometry. A total of 171 metabolites were identified, including 28 flavonoids, 35 phenolic acids, 43 iridoids, 9 amino acids, 6 nucleotides, 16 fatty acids, 22 lipids and 12 others. Four new secondary metabolites were discovered. Some flavonoids and iridoids were not detected in leaves and stems. Principal component analysis showed significant differences among four different tissues. Some 27, 81, 113 differential metabolites were found between flowers/flower buds, leaves/flower buds, stems/flower buds, respectively. Primary metabolites showed a higher content in the flowers and flower buds. For the flavonoids, flavones were mainly accumulated in the leaves, flavonols were mainly accumulated in the flower buds, and acylated flavonol glucosides were mainly accumulated in the flowers. Most phenolic acids showed a higher content in the flowers or flower buds, while phenolic acid-glucosides showed significantly higher content in the flower buds. The most abundant iridoids in the LJT also showed a higher content in the flowers and flower buds. These results can provide new insights into the understanding of the metabolites changes in different tissues, and lay a theoretical foundation for the comprehensive utilization of LJT. [ABSTRACT FROM AUTHOR]

The appropriate reference gene is a prerequisite for accurate normalization of gene expression level, and research on suitable reference genes in clam Cyclina sinensis is scarce. To improve the situation, we selected five commonly used housekeeping genes, including β-actin, Elongation factor 1-α (EF1-α), Glyceraldehyde-3-phosphate dehydrogenase (GAPDH), 40S ribosomal protein S18 (RPS18), and Tubulin α (TUB-α), then evaluated their expression stability in different adult tissues and under different experimental treatments (salinity stress and Vibrio parahaemolyticus infection). Their expression stability was analyzed by three frequently used programs, geNorm, NormFinder, and BestKeeper. This analysis indicated that multiple genes should be used for normalization, and we concluded that the reference gene combination GAPDH-RPS18-β-actin, should be used for qRT-PCR analysis in different tissues of C. sinensis under normal physiological conditions. For the clams under salinity stress and Vibrio infection, EF1-α-GAPDH-RPS18 was recommended as the gene combination for qRT-PCR normalization. TUB-α was generally poorly ranked by all programs, and should not be used in future studies. This study should provide fundamental support for accurate quantitative gene expression analysis of this species. [ABSTRACT FROM AUTHOR]

Copyright of Journal of Henan Agricultural Sciences is the property of Editorial Board of Journal of Henan Agricultural Sciences and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

Copyright of Journal of Food Safety & Quality is the property of Journal of Food Safety & Quality Editorial Department and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)

African swine fever is an acute, haemorrhagic fever and contagious disease of pigs caused by African swine fever virus (ASFV), which has a great impact on the pig farming industry and related international trade. Understanding the response processes of various tissues in pigs after ASFV infection may help to address current major concerns, such as the exploration of key genes for vaccine development, the cooperative mechanism of the host response and the possibility of establishing active herd immunity. ASFV is able to infect core tissues and is associated with acute death. RNA and protein samples were obtained and verified from five tissues, including the lung, spleen, liver, kidney and lymph nodes. Multiple duplicate samples were quantitatively analyzed by corresponding transcriptomic and proteomic comparison. The results showed that different tissues cooperated in responses to ASFV infection and coordinated the defence against ASFV in the form of an inflammatory cytokine storm and interferon activation. The lung and spleen were mainly involved (dominant) in the innate immune response pathway; the liver and kidney were involved in the metabolic regulatory pathway and the inflammatory response; and the lymph nodes cooperated with the liver to complete energy metabolism regulation. The key pathways and responsive genes in each tissue of the contracted pigs were comprehensively mapped by infectomics, providing further evidence to investigate the complicated tie between ASFV and host cells. [ABSTRACT FROM AUTHOR]

The root of Kadsura coccinea is a commonly used herb in traditional Chinese medicine, and flavonoids are one of the main active constituents of medicinal plants. This study intended to investigate whether the leaves and stems of K. coccinea plants may contain similar or highly enriched flavonoids in roots and to explore its application value. Widely-targeted metabolomics was used to identify the compounds in different organs of K. coccinea. According to their structural distribution and categories, the diversity and abundance of flavonoids were analyzed. The results were as follows:(1)The number of flavonoids metabolites in K. coccinea was sorted in descending order as leaf(80)> stem(73)> root(67), and a total of 61 flavonoids were the same in three parts. Leaves and stems contained more flavonols, contributing to a diversity of flavonoids greater than that in the roots.(2)Flavonols, flavonoids, flavanols, and chalcones were highly accumulated in the three parts. Among them, the accumulation of flavonols and flavonoids was lower in the stems and roots, resulting in a continuously, substantially decreasing abundance of flavonoids from leaf(24.00 × 107)to stem(13.45 × 107)to root(9.05 × 107).(3)Leaves and stems of K. coccinea contained a large amount of flavonoids that were also found in the roots and a variety of those not found in the roots, which could be considered for alternative or complementary use. Catechins highly expressed in all three parts, and the leaves were also rich in quercetin and its derivatives, which were highly valuable in application. [ABSTRACT FROM AUTHOR]

Lonicera japonica Thunb. (LJT) has been widely used as medicines or food additives in Asian countries for thousands of years. The flower buds are often medicinally used, and the other tissues are ignored. However, flowers, leaves and stems have also been reported to have antimicrobial, anti-inflammatory and antioxidant effects. In the current study, un-targeted metabolomics analysis was performed to investigate the metabolic difference among different tissues (flowers, flower buds, stems and leaves) of LJT based on liquid chromatography with mass spectrometry. A total of 171 metabolites were identified, including 28 flavonoids, 35 phenolic acids, 43 iridoids, 9 amino acids, 6 nucleotides, 16 fatty acids, 22 lipids and 12 others. Four new secondary metabolites were discovered. Some flavonoids and iridoids were not detected in leaves and stems. Principal component analysis showed significant differences among four different tissues. Some 27, 81, 113 differential metabolites were found between flowers/flower buds, leaves/flower buds, stems/flower buds, respectively. Primary metabolites showed a higher content in the flowers and flower buds. For the flavonoids, flavones were mainly accumulated in the leaves, flavonols were mainly accumulated in the flower buds, and acylated flavonol glucosides were mainly accumulated in the flowers. Most phenolic acids showed a higher content in the flowers or flower buds, while phenolic acid-glucosides showed significantly higher content in the flower buds. The most abundant iridoids in the LJT also showed a higher content in the flowers and flower buds. These results can provide new insights into the understanding of the metabolites changes in different tissues, and lay a theoretical foundation for the comprehensive utilization of LJT.

Contamination with heavy metals in wild red swamp crayfish (Procambarus clarkii) from 7 different geographical areas in six provinces of China (Hubei, Hunan, Jiangxi, Anhui, Jiangsu, and Shandong) was evaluated. Concentrations of chromium (Cr), arsenic (As), lead (Pb), cadmium (Cd), and mercury (Hg) in the abdominal muscle, gonad, and hepatopancreas were determined by inductively coupled plasma mass spectrometry (ICP-MS) and atomic fluorescence spectrometer (AFS). Except for the Cd content in the hepatopancreas, the contents of selected heavy metals in three different tissues were significantly lower than the proposed limits provided by United States Environmental Protection Agency (USEPA). The maximum accumulations of Cd and Pb were in the hepatopancreas, while the maximum accumulation of As was in the gonad, and the maximum accumulations of Hg and Cr were in the abdominal muscle. The highest contents of Cr, Hg, and Pb were all detected in Dongting Lake, Hunan, which was consistent with the trend of the metal pollution index (MPI). Risk value of the target hazard quotient (THQ) was below 1.0, suggesting that the intake of selected heavy metals through crayfish consumption would not pose a significant health risk to consumers. [ABSTRACT FROM AUTHOR]

Lemon fruits have a non-uniform histological structure, and are characterized by abundant volatile compounds. However, the distribution of volatile compounds in different tissues remain unknown. Herein, electronic nose (E-nose) and headspace solid-phase microextraction coupled with gas chromatography-mass spectrometry (HS-SPME-GC-MS) were employed to qualitatively and quantitatively analyze the volatile compound content in different tissues of fresh lemon fruits, while their microstructures were observed using several microscopy methods. The numbers of volatile compounds detected in the flavedo, albedo, juice vesicles, and segment wall were 41, 23, 29, and 19, respectively. The volatile compounds detected in the four tissues were mainly alkenes, alcohols, aldehydes, esters, and ketones, with a significant descending order in the total content (p <.05). The measurements of E-nose and HS-SPME-GC-MS both showed that the highest total content of volatile compounds was in the flavedo, followed by albedo, juice vesicles, and segment wall (p <.05). Furthermore, oil sacs and oil droplets were only observed in the flavedo by microstructure observation, where more essential oils (mainly volatile compounds) were distributed. The microstructure observation results also verified the measurement results of the E-nose and HS-SPME-GC-MS. These findings provide basic data for sensory evaluation and the comprehensive processing and utilization of lemon fruits. [ABSTRACT FROM AUTHOR]

Abstract In this study, the non‐targeted large‐scale plant metabolomics (UPLC‐Q‐Orbitrap‐MS) was performed for the comparison of chemical profiling of the leaves, barks, flowers, peels, pulps, and seeds of Clausena lansium (Lour.) Skeels (called “wampee”). A total of 364 metabolites were identified, and 62 potential biomarkers were selected by the multivariate statistical analysis. Hierarchical cluster analysis suggested that the selected biomarkers were significant differential metabolites among various parts of wampee. Metabolic pathway analysis showed a significant enrichment of the “Flavone and flavonol synthesis” and “Isoquinoline alkaloid biosynthesis” pathway. This study provides important information for the isolation and identification of functional components from different tissues of wampee and the metabolic biosynthesis pathway elucidation in detail.

Introduction: Taxus media (Taxus × media Rehder) is renowned for its high paclitaxel content, serving as a major source for industrial paclitaxel production. In addition to paclitaxel, T. media contains a diverse range of metabolites, including flavonoids, alkaloids, and terpenoids, which have been shown to possess antioxidant, antibacterial, anti-inflammatory, and immunomodulatory effects. However, these compounds have not been thoroughly studied as key metabolites in T. media., Objective: The untargeted metabolomics analysis of six T. media tissues provides new insights into the development and utilization of T. media metabolites., Method: The extracts from six tissues of T. media were analyzed and subjected to analysis using high-performance liquid chromatography coupled with quadrupole time-of-flight mass spectrometry (HPLC-Q-TOF-MS/MS) and chemometric techniques., Results: Using a reliable HPLC-Q-TOF-MS/MS method, we identified 312 compounds in six T. media tissues, including 214 previously unreported in T. media. To identify characteristic compounds across different tissues, 34 metabolites were further screened. KEGG metabolic pathway analysis revealed that these compounds primarily occur in the metabolic pathways of terpene glycosides, flavans, and O-methylated flavonoids., Conclusion: This study initially utilized an HPLC-QTOF-MS/MS-based metabolomics approach to assess the metabolites in different tissues of T. media, providing a basis for their utilization and management., (© 2024 John Wiley & Sons Ltd.)

Cinnamomum longepaniculatum (Gamble) N. Chao is an important woody incense plant that contains volatile terpenoids and has been extensively cultivated in Yibin, China. However, the relationship between endophytic fungal diversity and C. longepaniculatum species remains unclear. Here, fungal taxa in different tissue samples were analyzed using Illumina-based sequencing of ITS1 region of fungal rDNA genes. Results showed that 476 OTUs were identified in all tissues of C. longepaniculatum, with 78 OTUs common among all tissues. Similarity cluster analysis indicated that these OTUs belong to 5 phyla and at least 18 genera, with a large number of OTUs remaining unidentified at family and genus levels. The fungal community in seeds exhibited the greatest richness and diversity, followed by those in branches, leaves, and roots, respectively. Unclassified Chaetosphaeriales (91.66%), Passalora (57.17%), and unclassified Ascomycota (58.79%) OTUs dominated in root, branch, and leaf communities, respectively, and other common groups in the branch community included unclassified Ascomycota (12.13%), Houjia (10.38%), and Pseudoveronaea (5.43%), whereas other common groups in leaf community included Passalora (11.43%) and Uwebraunia (8.58%). Meanwhile, the seed community was dominated by unclassified Ascomycota (16.98%), unclassified Pleosporaceae (15.46%), and Talaromyces (12.50%) and also included high proportions of unclassified Nectriaceae (7.68%), Aspergillus (6.95%), Pestalotiopsis (6.02%), and Paraconiothyrium (5.11%) and several seed-specific taxa, including Peniophora, Cryptodiscus, and Penicillium. These findings suggest that Yibin-native C. longepaniculatum harbors rich and diverse endophytic communities that may represent an underexplored reservoir of biological resources. [ABSTRACT FROM AUTHOR]

In this study, the non‐targeted large‐scale plant metabolomics (UPLC‐Q‐Orbitrap‐MS) was performed for the comparison of chemical profiling of the leaves, barks, flowers, peels, pulps, and seeds of Clausena lansium (Lour.) Skeels (called "wampee"). A total of 364 metabolites were identified, and 62 potential biomarkers were selected by the multivariate statistical analysis. Hierarchical cluster analysis suggested that the selected biomarkers were significant differential metabolites among various parts of wampee. Metabolic pathway analysis showed a significant enrichment of the "Flavone and flavonol synthesis" and "Isoquinoline alkaloid biosynthesis" pathway. This study provides important information for the isolation and identification of functional components from different tissues of wampee and the metabolic biosynthesis pathway elucidation in detail. [ABSTRACT FROM AUTHOR]

Qian ceng Ta, the whole plant of Huperzia serrata, is an important landscape and medicinal herbs and contains abundant bioactive lycopodium alkaloids. Although the structures of more than 100 lycopodium alkaloids in Huperzia serrata have been isolated and identified, the content and distribution of these alkaloids in different tissues are still unclear. In current study, an ultra-performance liquid chromatography-mass spectrometry based comprehensive metabolomics strategy was developed, including the extraction, separation, identification, and statistical analysis. The results showed that different types lycopodium alkaloids could be separated at different time-windows, which was helpful for further metabolite identification. Peak4388 and peak3954 were metabolite biomarkers for the different tissues according to the principle component analysis and partial least squares-discriminant analysis model. A computational tool based in-house database was also built up and used for putative identification. Of the 2354 true peaks after four-step filtration, 118 peaks were putatively identified as lycopodium alkaloids by using in-house database, and four of which was identified by authentic standards. Alternatively, another computational software was used to predict the fragmentation pattern, to dereplicate the structure of identified peaks, and identified the peak3585 to N-methylhuperzine A. The integration of both computational tools could be used for more metabolites identification.

Cryptomeria fortunei has become one of the main timber afforestation species in subtropical high-altitude areas of China due to its fast growth, good material quality, and strong adaptability, showing broad application prospects. Quantitative real-time PCR (qRT-PCR) is the most accurate and widely used gene expression evaluation technique, and selecting appropriate reference genes (RGs) is essential for normalizing qRT-PCR results. However, suitable RGs for gene expression normalization in C. fortunei have not been reported. Here, we tested the expression stability for 12 RGs in C. fortunei under various experimental conditions (simulated abiotic stresses (cold, heat, drought, and salinity) and hormone treatments (methyl jasmonate, abscisic acid, salicylic acid, and gibberellin) and in different tissues (stems, tender needles, needles, cones, and seeds) using four algorithms (delta Ct, geNorm, NormFinder, and BestKeeper). Then, geometric mean rankings from these algorithms and the RefFinder program were used to comprehensively evaluate RG stability. The results indicated CYP, actin, UBC, and 18S as good choices for studying C. fortunei gene expression. qRT-PCR analysis of the expression patterns of three target genes (CAT and MAPK1/6) further verified that the selected RGs were suitable for gene expression normalization. This study provides an important basis for C. fortunei gene expression standardization and quantification.

Deer antlers are unique mammalian appendages that grow faster than any other known organ. During the rapid growth stage at 60 days after casting the previous antler, the maximal antler growth rate is up to or even more than 2 cm/day. Antler growth is driven by the growth center located in the antler tip. The growth center consists of several tissue layers from distal to proximal, including the skin, mesenchyme, precartilage, and cartilage. To analyze the gene expression patterns of the antler growth center in a tissue-differential manner and explore the molecular mechanism responsible for rapid antler growth, we used an RNA-Seq method to analyze gene expression patterns in different tissues of the Sika deer antler growth center during the rapid growth stage. We demonstrated considerable diversity in the expression levels of functional genes among different tissues within the antler growth center. These tissue-differentially expressed genes included transcription factors, growth factors, and extracellular matrix proteins. We identified a series of genes that contribute to chondrogenesis from mesenchymal cell condensation to chondrocyte differentiation. The genes identified in the antler growth center at the rapid growth stage provide valuable insight into the physiological mechanisms underlying rapid antler growth. [ABSTRACT FROM AUTHOR]

[Objective] The paper was to explore the changes of GHR gene expression in different tissues of mink. [Method] With American mink as the research object, the expression volumes of GHR gene in heart, liver, spleen, lung, kidney, intestine and skin tissues at different growth stages(45, 90, 120, 150 and 180 days of age) were detected by real-time PCR, and comparative analysis was performed. [Result] The GHR gene expressions in heart, liver and spleen tissues at 180 days of age were extremely higher than those at other days of age( P<0.01). The GHR gene expression in lung tissue at 120 days of age was extremely higher than those at other days of age( P<0.01). The GHR gene expressions in intestine tissue at 45 and 120 days of age were extremely higher than those at other days of age(P<0.01), but no significant difference was observed between 45 and 120 days of age(P>0.05). The GHR gene expression in kidney tissue at 150 days of age was significantly higher than those at other days of age( P<0.05).The GHR gene expression in skin tissue was extremely higher than that those at other days of age( P<0.01). The GHR gene expressions in intestinal tissue at 45 and 120 days of age were extremely higher than those in other tissues(P<0.01). The GHR gene expressions in skin tissue at 90 days of age was extremely higher than those in other tissues(P<0.01). The GHR gene expressions in intestine, spleen and kidney tissues at 150 days of age were extremely higher than those in other tissues(P<0.01). The GHR gene expressions in spleen tissue at 180 days of age was extremely higher than those in other tissues(P<0.01). [Conclusion] The expression of GHR gene in mink showed obvious spatio-temporal specificity. [ABSTRACT FROM AUTHOR]

BACKGROUND: There is a growing interest in buckwheat germination regarding the improvement of its health benefits. The aims of this study were to evaluate the effects of germination on polyphenol compounds, antioxidant activity, and phenylalanine ammonia‐lyase (PAL) gene expression in different tissues (cotyledon, hypocotyl, and radicle) of buckwheat sprouts during germination for 12 days, as well as to investigate their interactions. RESULTS: Total polyphenol and total flavonoid contents, antioxidant activity, main polyphenol components, and PAL gene expression significantly increased during germination. On day 12, the rutin content in cotyledons was elevated to 88.6 g kg−1, which was 7.7‐times and 39.4‐times compared to those in buckwheat seeds and radicles, respectively. Meanwhile, chlorogenic acid in hypocotyls reached 7.84 g kg−1, which was 36.3‐fold higher than those in radicles. However, the PAL gene showed the highest expression in radicles. CONCLUSION: Present results showed that polyphenol compounds mainly accumulated in cotyledons and hypocotyls. There was a negative correlation between polyphenol compounds and PAL gene expression. The discrepancy suggested that polyphenol compounds might experience transportation within buckwheat sprouts. The study could provide useful information for further application of buckwheat in functional foods, and revelation of the correlation between bioactive components and related gene expressions. © 2018 Society of Chemical Industry [ABSTRACT FROM AUTHOR]

Dendrobium is widely used in traditional Chinese medicine, which contains many kinds of active ingredients. In recent years, many Dendrobium transcriptomes have been sequenced. Hence, weighted gene co-expression network analysis (WGCNA) was used with the gene expression profiles of active ingredients to identify the modules and genes that may associate with particular species and tissues. Three kinds of Dendrobium species and three tissues were sampled for RNA-seq to generate a high-quality, full-length transcriptome database. Based on significant changes in gene expression, we constructed co-expression networks and revealed 19 gene modules. Among them, four modules with properties correlating to active ingredients regulation and biosynthesis, and several hub genes were selected for further functional investigation. This is the first time the WGCNA method has been used to analyze Dendrobium transcriptome data. Further excavation of the gene module information will help us to further study the role and significance of key genes, key signaling pathways, and regulatory mechanisms between genes on the occurrence and development of medicinal components of Dendrobium.

The aim of this research was to identify the volatile metabolites produced in different organs (leaves, stem and roots) of Polygonum minus, an important essential oil producing crop in Malaysia. Two methods of extraction have been applied: Solid Phase Microextraction (SPME) and hydrodistillation coupled with Gas Chromatography-Mass Spectrometry (GC-MS). Approximately, 77 metabolites have been identified and aliphatic compounds contribute significantly towards the aroma and flavour of this plant. Two main aliphatic compounds: decanal and dodecanal were found to be the major contributor. Terpenoid metabolites were identified abundantly in leaves but not in the stem and root of this plant. Further studies on antioxidant, total phenolic content, anticholinesterase and antimicrobial activities were determined in the essential oil and five different extracts. The plant showed the highest DPPH radical scavenging activity in polar (ethanol) extract for all the tissues tested. For anti-acetylcholinesterase activity, leaf in aqueous extract and methanol extract showed the best acetylcholinesterase inhibitory activities. However, in microbial activity, the non-polar extracts (n-hexane) showed high antimicrobial activity against Methicillin-resistant Staphylococcus aureus (MRSA) compared to polar extracts. This study could provide the first step in the phytochemical profiles of volatile compounds and explore the additional value of pharmacology properties of this essential oil producing crop Polygonum minus.

Distribution of volatile compounds in different fruit structures were analyzed in four tomato cultivars by headspace-solid-phase microextraction (SPME)-gas chromatography-mass spectrometry (GC-MS). A total of 36 volatile compounds were identified in fruit samples, which were primarily aldehydes, hydrocarbons, alcohols, ketones, furans, esters, nitrogen compounds, and sulfur and nitrogen-containing heterocyclic compounds. The volatile compositions in pericarp (PE), septa and columella (SC), locular gel and seeds (LS), and stem end (SE) tissues showed different profiles. The PE tissue showed the highest total volatile concentration due to a high abundance of aldehydes, especially cis-3-hexenal and benzaldehyde. Meanwhile, it showed higher aromatic proportion and herbaceous series intensity than other tissues. Floral and fruity series showed higher intensity in SC and LS tissues. The concentration of alcohols in the LS was higher than that in other tissues in association with the higher abundances of 2-methyl propanol, 3-methyl butanol, and 2-methyl butanol. However, the numbers and concentrations of volatile compounds, especially cis-3-hexenal, benzaldehyde, and geranyl acetone were lower in SE than in the other tissues, indicating less tomato aromas in SE. SE tissues were also lacking in floral and fruity characteristic compounds, such as geranyl acetone, 1-nitro-pentane, and 1-nitro-2-phenylethane. “FL 47” contained more volatile compounds than the other three, and the contents of aldehydes, ketones and oxygen-containing heterocyclic compounds in the “Tygress” fruit were higher than the other cultivars.

The patterns of expression of two subunits of 20β-hydroxysteroid dehydrogenase (20β-HSD), key enzyme involved in the biosynthesis and activation of steroid hormones, were examined in rainbow trout by using a combination of quantitative real-time PCR and in-situ hybridization. The expression of targeted genes was examined in mRNA extracted from different tissues at different gonadal stages in male and female trout. Both subunits of 20β-HSD were found to be widely distributed in tissues. The highest expression of 20β-HSD A was found in intestine followed by skin, stomach, liver and gills, whereas, the highest expression of 20β-HSD B was observed in stomach followed by head kidney, ovary − at late vitellogenesis stage- and trunk kidney. In ovarian tissue 20β-HSD A was highly expressed in mature oocytes, and the highest expression of 20β-HSD B was in ovary at late vitellogenesis stage. There were no differences in the level of expression of either subunit among groups of rainbow trout at different stages of maturational competence. In male fish, 20β-HSD A was highly expressed in testis stage I in contrast to 20β-HSD B which was highly expressed in testis stage VIII. In situ- hybridization results showed that the 20β-HSD gene was highly expressed in gastrointestinal organs, while only slightly expressed in the gonadal tissue of fish at stage 62 day-post-fertilization (dpf). Overall, the results confirm the ubiquitous presence of 20β-HSD among tissues in rainbow trout with relatively minor fluctuations in expression associated with reproductive cycles which collectively suggests a wider metabolic role of these enzymes than just an association with the synthesis of control hormones for reproduction. [ABSTRACT FROM AUTHOR]

Purpose:To study the efficiency of a dual slot antenna with a floating metallic sleeve on the ablation of differentex vivobovine tissues. Materials and methods:COMSOL Multiphysics® version 4.4 (Stockholm, Sweden), which is based on finite element methods (FEM), was used to design and simulate monopole and dual slot with sleeve antennas. Power, specific absorption rate (SAR), temperature and necrosis distributions in the selected tissues were determined using these antennas. Monopole and dual slot with sleeve antennas were designed, simulated, constructed and applied in this study based on a semi-rigid coaxial cable.Ex vivoexperiments were performed on liver, lung, muscle and heart of bovine obtained from a public animal slaughter house. The microwave energy was delivered using a 2.45 GHz solid-state microwave generator at 40 W for 3, 5 and 10 min. Aspect ratio, ablation length and ablation diameter were also determined on ablated tissues and compared with simulated results. Student’st-test was used to compare the statistically significant difference between the performance of the two antennas. Results:The dual slot antenna with sleeve produces localised microwave energy better than the monopole antenna in all ablated tissues using simulation and experimental validation methods. There were significant differences in ablation diameter and aspect ratio between the sleeve antenna and monopole antenna. Additionally, there were no significant differences between the simulation and experimental results. Conclusions:This study demonstrated that the dual slot antenna with sleeve produced larger ablation zones and higher sphericity index inex vivobovine tissues with minimal backward heating when compared with the monopole antenna. [ABSTRACT FROM PUBLISHER]

The aim of this research was to identify the volatile metabolites produced in different organs (leaves, stem and roots) of Polygonum minus, an important essential oil producing crop in Malaysia. Two methods of extraction have been applied: Solid Phase Microextraction (SPME) and hydrodistillation coupled with Gas Chromatography-Mass Spectrometry (GC-MS). Approximately, 77 metabolites have been identified and aliphatic compounds contribute significantly towards the aroma and flavour of this plant. Two main aliphatic compounds: decanal and dodecanal were found to be the major contributor. Terpenoid metabolites were identified abundantly in leaves but not in the stem and root of this plant. Further studies on antioxidant, total phenolic content, anticholinesterase and antimicrobial activities were determined in the essential oil and five different extracts. The plant showed the highest DPPH radical scavenging activity in polar (ethanol) extract for all the tissues tested. For anti-acetylcholinesterase activity, leaf in aqueous extract and methanol extract showed the best acetylcholinesterase inhibitory activities. However, in microbial activity, the non-polar extracts (n-hexane) showed high antimicrobial activity against Methicillin-resistant Staphylococcus aureus (MRSA) compared to polar extracts. This study could provide the first step in the phytochemical profiles of volatile compounds and explore the additional value of pharmacology properties of this essential oil producing crop Polygonum minus. [ABSTRACT FROM AUTHOR]

Medical effects of hydrogen have been reported in many studies. Due to difficulties in measuring hydrogen concentration in vivo after intake and high explosive risks of hydrogen, studies about dose-response relationships and tissue concentrations of hydrogen are few. Here, for the first time, we monitored real-time hydrogen concentrations in different tissues in rats including brain, liver, spleen, kidney, thigh muscle, inguinal white adipose tissue, and gonadal white adipose tissue after inhaling different concentrations of hydrogen (4%, 42%, and 67%) using an electrochemical sensor. Hydrogen concentrations in the same tissue showed a dose-dependent response. The equilibrium concentration values were highest in the brain and lowest in the thigh muscle. The saturation and desaturation curves changed more slowly in the thigh muscle and white adipose tissues than in other tissues. These results provide fundamental information for the selection of hydrogen dose applications in basic research and clinical trials. The experiments were approved by the Laboratory Animal Ethics Committee of Shandong First Medical University & Shandong Academy of Medical Sciences (No. 2020-1028) on March 18, 2020., Competing Interests: None

This study evaluated the seasonal accumulation of boron and fluoride in different tissues of a common edible fish,Tilapia nilotica, from an Egyptian fish farm as well as their hazard to human health. Among all the determined fish tissues, brain, liver, and bone were the ones that accumulated the highest boron and fluoride contents. Interestingly, flesh tissue showed the lowest boron and fluoride concentrations (0.30 ± 0.06 and 2.50 ± 1.57 μg/g, respectively). Statistical analyses using Pearson correlation matrix and multiple regression procedures indicated that boron accumulation was highest amongst flesh, liver, brain, and bone tissues. Additionally, fluoride content in water affects its abundance in the different fish tissues: flesh, gills, bone, and skin. Human hazard assessment of fluoride and boron from water, sediment, and fish flesh tissue was studied using calculations that considered chronic daily intake from water, sediment, and fish; chronic exposure from dermal contact and ingestion of water; and fish as well as a single acute human dose. These calculations indicated that the consumption ofTilapia niloticais still safe as regards boron intake, but for fluoride, it may pose a hazard to human health in the long term. [ABSTRACT FROM AUTHOR]

The study was undertaken to assess the accumulation of some heavy metals (Cr, Co, Cu, Ni, Zn, Pb and Cd) in different tissues (muscle, gills, heart, liver, brain, bone and skin) ofTilapia nilotica. It is one of the most edible fish species in Egypt and was collected from a commercial fish farm in order to evaluate their potential risk to fishermen and consumers. This fish farm is fed with discharged water containing agricultural, industrial, sewage and domestic wastes. The length-weight relation and condition factor calculation ofTilapia niloticasamples showed a significant linear regression (r2= 0.920) and an average condition factor of 4.1 g/cm3. This indicated that the health status for the studied fish samples was good. Metal pollution index (MPI) values for the determined heavy metals in the different tissues reflected that the muscle was the only tissue that had the lowest content. Provisional Tolerable Weekly Intake (PTWI) values for the investigated heavy metals were lower than those reported for the permissible limits. The data were evaluated by using ANOVA statistical analysis. For appraising the human health risk effects of heavy metals in fish muscle, estimated dietary intake (EDI) and hazard quotient (HQ) were determined. HQ levels indicated that Cr and Co were the only heavy metals among the determined ones that had values more than unity. Also, their relative contributions in fish consumptions were Cr> Co> Pb> Ni> Cu> Cd> Zn. The highest average HQ value of chromium determined in this study referred to the possible adverse effects of Cr on human health. Accordingly, the potential public health risks from dietary exposure to hazardous contaminants in fish species from fish farms must be continually subjected to research, regulation and debate. [ABSTRACT FROM AUTHOR]