scholarly journals Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in Eucalyptus grandis Hill

Forests ◽  
2021 ◽  
Vol 12 (11) ◽  
pp. 1565
Author(s):  
Ni Zhan ◽  
Zhen Wang ◽  
Yaojian Xie ◽  
Xiuhua Shang ◽  
Guo Liu ◽  
...  
Keyword(s):  
Raw Materials ◽  
Eucalyptus Grandis ◽  
Differentially Expressed ◽  
Cellulose Synthesis ◽  
Eucalyptus Species ◽  
Cellulose Biosynthesis ◽  
Wild Type ◽  
Micro Rnas ◽  
Significant Difference ◽  
Non Coding Rnas

Cellulose, an essential structural component in the plant cell wall and a renewable biomass resource, plays a significant role in nature. Eucalyptus’s excellent timber tree species (including Eucalyptus grandis Hill) provide many raw materials for the paper and wood industries. The synthesis of cellulose is a very complex process involving multiple genes and regulated by various biological networks. However, research on regulating associated genes and non-coding RNAs during cellulose synthesis in E. grandis remains lacking. In this study, the wood anatomical characteristics and chemical indexes of E. grandis were analyzed by taking three different parts (diameter at breast height (DBH), middle and upper part of the trunk) from the main stem of E. grandis as raw materials. The role of non-coding RNAs (Long non-coding RNA, lncRNA; Micro RNA, miRNA; Circle RNA, circRNA) on regulating candidate genes was presented, and the network map of ceRNA (Competing endogenous RNA) regulation during wood cellulose biosynthesis of E. grandis was constructed. The transcriptome sequencing of nine samples obtained from the trunk of the immature xylem in E. grandis at DBH, middle and upper parts had a 95.81 G clean reading, 57,480 transcripts, 7365 lncRNAs, and 5180 circRNAs. Each sample had 172–306 known miRNAs and 1644–3508 new miRNAs. A total of 190 DE-lncRNAs (Differentially expressed long non-coding RNAs), 174 DE-miRNAs (Differentially expressed micro RNAs), and 270 DE-circRNAs (Differentially expressed circle RNAs) were obtained by comparing transcript expression levels. Four lncRNAs and nine miRNAs were screened out, and the ceRNA regulatory network was constructed. LncRNA1 and lncRNA4 regulated the genes responsible for cellulose synthesis in E. grandis, which were overexpressed in 84K (Populus Alba × Populus glandulosa) poplar. The cellulose and lignin content in lncRNA4-oe were significantly higher than wild type 84K poplar and lncRNA1-oe. The average plant height, middle and basal part of the stem diameter in lncRNA4-oe were significantly higher than the wild type. However, there was no significant difference between the growth of lncRNA1-oe and the wild type. Further studies are warranted to explore the molecular regulatory mechanism of cellulose biosynthesis in Eucalyptus species.

Host preference, population dynamics, distribution, and injuries of Oligonychus punicae (Acari: Tetranychidae) in an eucalyptus clonal minigarden

2020 ◽  
Vol 25 (9) ◽  
pp. 1649-1660
Author(s):  
José Cláudio Barros Ferraz ◽  
Silvestre Moreira Da Silva ◽  
Solange Maria De França ◽  
Paulo Roberto Ramalho Silva ◽  
José Wagner Da Silva Melo ◽  
...  
Keyword(s):  
Host Preference ◽  
Population Distribution ◽  
Management Strategies ◽  
Eucalyptus Grandis ◽  
Eucalyptus Species ◽  
Eucalyptus Urophylla ◽  
Aggregate Distribution ◽  
Population Peak ◽  
Significant Difference ◽  
Phytosanitary Products

Oligonychus punicae has potential for development in several species of eucalyptus. In this study was evaluated the preference for permanence and oviposition of O. punicae in different eucalyptus species. Additionally, we evaluated its dynamics and population distribution, as well as injuries in strains of Eucalyptus urophylla in a clonal minigarden. The preference for permanence and oviposition of O. punicae was evaluated using a test with and without choice in six species of Eucalyptus. We also analyzed the dynamics, population distribution and injury levels by O. punicae on E. urophylla in a clonal minigarden. We collected samples for 24 months and counted the number of eggs, immature and adult individuals. We calculated the Morisita dispersion index. We estimated injuries on leaves of E. urophylla using visual notes. In the test with choice, Eucalyptus urophylla was the preferred host of O. punicae for permanence and oviposition. In the test without choice, the oviposition of O. punicae in eucalyptus species did not differ statistically until 24 hours of evaluation. However, there was a significant difference after 48 hours, with greater oviposition on Eucalyptus brassiana, Eucalyptus tereticornis and Eucalyptus grandis. In the population survey, we collected 3,293 mites. The population peak of O. punicae occurred in March and April 2018 and April 2019. Oligonychus punicae presented an aggregate distribution and caused injuries of 20% on average in leaves. These results are important to guide management strategies in specific infestation foci and optimizing the use of phytosanitary products.

scholarly journals Transcriptome Analysis Reveals Differentially Expressed Genes and Long Non-coding RNAs Associated With Fecundity in Sheep Hypothalamus With Different FecB Genotypes

2021 ◽  
Vol 9 ◽  
Author(s):  
Si Chen ◽  
Xiaofei Guo ◽  
Xiaoyun He ◽  
Ran Di ◽  
Xiaosheng Zhang ◽  
...  
Keyword(s):  
Functional Annotation ◽  
Target Genes ◽  
Expression Profiles ◽  
Regulatory Elements ◽  
Reproductive Hormones ◽  
Differentially Expressed ◽  
Wild Type ◽  
Reproductive Process ◽  
Gnrh Secretion ◽  
Non Coding Rnas

Small-tailed Han sheep, with different FecB genotypes, manifest distinct ovulation rates and fecundities, which are due to differences in reproductive hormones secreted by the hypothalamic–pituitary–ovarian axis. Nevertheless, the function of the hypothalamus against a FecB mutant background on increasing ovulation rate is rarely reported. Therefore, we determined the expression profiles of hypothalamus tissue collected from six wild-type (WW) and six FecB mutant homozygous (BB) ewes at the follicular and luteal phases by whole-transcriptome sequencing. We identified 53 differentially expressed mRNAs (DEGs) and 40 differentially expressed long non-coding RNAs (DELs) between the two estrus states. Functional annotation analysis revealed that one of the DEGs, PRL, was particularly enriched in the hypothalamic function, hormone-related, and reproductive pathways. The lncRNA–target gene interaction networks and KEGG analysis in combination suggest that the lncRNAs LINC-676 and WNT3-AS cis-acting on DRD2 and WNT9B in different phases may induce gonadotropin-releasing hormone (GnRH) secretion. Furthermore, there were differences of regulatory elements and WNT gene family members involved in the follicular–luteal transition in the reproductive process between wild-type (WNT7A) and FecB mutant sheep (WNT9B). We combined the DEG and DEL data sets screened from different estrus states and genotypes. The overlap of these two sets was identified to select the mRNAs and lncRNAs that have major effects on ovulation. Among the overlapping molecules, seven DEGs and four DELs were involved in the follicular–luteal transition regulated by FecB mutation. Functional annotation analysis showed that two DEGs (FKBP5 and KITLG) were enriched in melanogenesis, oxytocin, and GnRH secretion. LINC-219386 and IGF2-AS were highly expressed in the BB ewes compared with WW ewes, modulating their target genes (DMXL2 and IGF2) to produce more GnRH during follicular development, which explains why mutated ewes produced more mature follicles. These results from expression profiling of the hypothalamus with the FecB mutation at different estrus states provide new insights into how the hypothalamus regulates ovulation under the effect of the FecB mutation.

Host preference, population dynamics, distribution, and injuries of Oligonychus punicae (Acari: Tetranychidae) in an eucalyptus clonal minigarden

2020 ◽  
Vol 25 (9) ◽  
pp. 1649-1660
Author(s):  
José Cláudio Barros Ferraz ◽  
Silvestre Moreira Da Silva ◽  
Solange Maria De França ◽  
Paulo Roberto Ramalho Silva ◽  
José Wagner Da Silva Melo ◽  
...  
Keyword(s):  
Host Preference ◽  
Population Distribution ◽  
Management Strategies ◽  
Eucalyptus Grandis ◽  
Eucalyptus Species ◽  
Eucalyptus Urophylla ◽  
Aggregate Distribution ◽  
Population Peak ◽  
Significant Difference ◽  
Phytosanitary Products

Oligonychus punicae has potential for development in several species of eucalyptus. In this study was evaluated the preference for permanence and oviposition of O. punicae in different eucalyptus species. Additionally, we evaluated its dynamics and population distribution, as well as injuries in strains of Eucalyptus urophylla in a clonal minigarden. The preference for permanence and oviposition of O. punicae was evaluated using a test with and without choice in six species of Eucalyptus. We also analyzed the dynamics, population distribution and injury levels by O. punicae on E. urophylla in a clonal minigarden. We collected samples for 24 months and counted the number of eggs, immature and adult individuals. We calculated the Morisita dispersion index. We estimated injuries on leaves of E. urophylla using visual notes. In the test with choice, Eucalyptus urophylla was the preferred host of O. punicae for permanence and oviposition. In the test without choice, the oviposition of O. punicae in eucalyptus species did not differ statistically until 24 hours of evaluation. However, there was a significant difference after 48 hours, with greater oviposition on Eucalyptus brassiana, Eucalyptus tereticornis and Eucalyptus grandis. In the population survey, we collected 3,293 mites. The population peak of O. punicae occurred in March and April 2018 and April 2019. Oligonychus punicae presented an aggregate distribution and caused injuries of 20% on average in leaves. These results are important to guide management strategies in specific infestation foci and optimizing the use of phytosanitary products.

Analysis of LRP1B as a potential biomarker for colorectal cancer immunotherapy.

2021 ◽  
Vol 39 (15_suppl) ◽  
pp. e15521-e15521
Author(s):  
Ruiting Liu ◽  
Qianqian Duan ◽  
Qin Zhang
Keyword(s):  
Colorectal Cancer ◽  
Cancer Immunotherapy ◽  
Differentially Expressed ◽  
Multidimensional Data ◽  
Wild Type ◽  
Potential Biomarker ◽  
Significant Difference ◽  
Chinese Cohort ◽  
Mutation Group ◽  
Immune Related Genes

e15521 Background: Low-density lipoprotein receptor-related protein 1B (LRP1B), a putative tumor suppressor, is one of the most frequently altered gene in cancer. Recently, there are emerging evidences that LRP1B is involved in sensitivity to melanoma and non-small cell lung cancer immunotherapy. Here we explored the relationship between LRP1B mutation and potential effect of immunotherapy for colorectal cancer (CRC) based on multidimensional data. Methods: Next-generation sequencing (NGS) data of CRC patients (n = 536) from TCGA and Chinese clinical dataset (n = 249) was used to evaluate tumor mutational burden (TMB) differences between LRP1B mutation group and wildtype group. TMB was calculated as the total count of nonsynonymous mutations in coding sequence. Neoantigens of CRC samples (n = 214) were obtained from The Cancer Immunome Atlas. In addition, we investigated the association of LRP1B mutation with 30 immune-related genes, which were classified into 3 categories: immune checkpoint, T-effector and interferon-γ gene signature, and T cell receptor. Results: 22.95% (123/536) patients in TCGA harbored LRP1B mutation. In the Chinese cohort, the LRP1B mutation ratio (24.50%, 61/249) was similar to TCGA. The TMB level of LRP1B mutation group in both TCGA and Chinese cohort was significantly higher than wild-type group (P < 0.001). The TNB between two group is also showed a significant difference (P < 0.001) in TCGA. Of the 30 immune-related genes, 27 (90.0%) genes are differentially expressed (P < 0.05) and all 27 differentially expressed genes have higher expression levels in LRBP1-mutated samples in comparison with wild-type ones. Conclusions: LRBP1-mutated CRC patients have a higher TMB, TNB and show higher expression level with immune-related genes. These results indicated that LRP1B mutation may serve as a potential biomarker of ICI benefit in CRC patients. Moreover, further clinical insights and prospective validation studies are warranted.

Оrganic Meat Production of Broiler Chickens Hubbard Redbro Cross

2020 ◽  
Keyword(s):  
Broiler Chickens ◽  
Raw Materials ◽  
Animal Health ◽  
Meat Products ◽  
Poultry Meat ◽  
Meat Production ◽  
Significant Difference ◽  
Environmentally Safe ◽  
The Impact

This article presents the results of studying the impact of housing and feeding conditions on broiler chickens of Hubbard RedBro cross, as well as the quality of products obtained when using floor and cage content, in a farm. It established that when receiving a mixed feed of own production using feed raw materials grown on a farm without the use of pesticides, a statistically significant decrease in potentially dangerous substances for animal health is recorded. Compared with factory feed, it has reduced the content of pesticides by 14 times, and mercury and arsenic by 24 times, cadmium by five times, and lead by ten times. The results of the study of economic indicators of growing Hubbard RedBro cross broiler chickens, as well as the chemical composition and quality of carcasses, indicated that there was no significant difference between the floor and cell conditions of keeping. Still, the use of a diet based on eco-feeds contributed to a statistically significant decrease in the concentration of toxic metals in the muscles of the poultry of the experimental groups. As a result, it found that the use of the studied compound feed in the diets of broiler chickens increased the indicators of Biosafety and ensured the production of environmentally safe ("organic") poultry meat products.

Cardiac transthyretin wild-type amyloidosis (ATTRwt): a prospective study of 400 patients followed at the Italian referral center

2020 ◽  
Vol 41 (Supplement_2) ◽  
Author(s):  
P Milani ◽  
L Obici ◽  
R Mussinelli ◽  
M Basset ◽  
G Manfrinato ◽  
...  
Keyword(s):  
Natural History ◽  
Median Survival ◽  
Troponin I ◽  
Stage I ◽  
Stage Ii ◽  
Stage Iii ◽  
Wild Type ◽  
Staging Systems ◽  
Significant Difference ◽  
History Of

Abstract Background Cardiac wild type transthyretin (ATTRwt) amyloidosis, formerly known as senile systemic amyloidosis, is an increasingly recognized, progressive, and fatal cardiomyopathy. Two biomarkers staging systems were proposed based on NT-proBNP (in both cases) and troponin or estimated glomerular filtration rate, that are able to predict survival in this population. The availability of novel effective treatments requires large studies to describe the natural history of the disease in different populations. Objective To describe the natural history of the disease in a large, prospective, national series. Methods Starting in 2007, we protocolized data collection in all the patients diagnosed at our center (n=400 up to 7/2019). Results The referrals to our center increased over time: 5 cases (1%) between 2007–2009, 33 (9%) in 2010–2012, 90 (22%) in 2013–2015 and 272 (68%) in 2016–2019. Median age was 76 years [interquartile range (IQR): 71–80 years] and 372 patients (93%) were males. One hundred and seventy-three (43%) had atrial fibrillation, 63 (15%) had a history of ischemic cardiomyopathy and 64 (15%) underwent pacemaker or ICD implantation. NYHA class was I in 58 subjects (16%), II in 225 (63%) and III in 74 (21%). Median NT-proBNP was 3064 ng/L (IQR: 1817–5579 ng/L), troponin I 0.096 ng/mL (IQR: 0.063–0.158 ng/mL), eGFR 62 mL/min (IQR: 50–78 mL/min). Median IVS was 17 mm (IQR: 15–19 mm), PW 16 mm (IQR: 14–18 mm) and EF 53% (IQR: 45–57%). One-hundred and forty-eight subjects (37%) had a concomitant monoclonal component in serum and/or urine and/or an abnormal free light chain ratio. In these patients, the diagnosis was confirmed by immunoelectron microscopy or mass spectrometry. In 252 (63%) the diagnosis was based on bone scintigraphy. DNA analysis for amyloidogenic mutations in transthyretin and apolipoprotein A-I genes was negative in all subjects. The median survival of the whole cohort was 59 months. The Mayo Clinic staging based on NT-proBNP (cutoff: 3000 ng/L) and troponin I (cutoff: 0.1 ng/mL) discriminated 3 different groups [stage I: 131 (35%), stage II: 123 (32%) and stage III: 127 (33%)] with different survival between stage I and II (median 86 vs. 81 months, P=0.04) and between stage II and III (median 81 vs. 62 months, P&lt;0.001). The UK staging system (NT-proBNP 3000 ng/L and eGFR 45 mL/min), discriminated three groups [stage I: 170 (45%), stage II: 165 (43%) and stage III: 45 (12%)] with a significant difference in survival: between stage I and stage II (86 vs. 52 months, P&lt;0.001) and between stage II and stage III (median survival 52 vs. 33 months, P=0.045). Conclusions This is one of the largest series of patients with cardiac ATTRwt reported so far. Referrals and diagnoses increased exponentially in recent years, One-third of patients has a concomitant monoclonal gammopathy and needed tissue typing. Both the current staging systems offered good discrimination of staging and were validated in our independent cohort. Funding Acknowledgement Type of funding source: None

scholarly journals 2-Piece Cork Stoppers as Alternative for Valorization of Thin Cork Planks: Analysis by LCA Methodology

Foods ◽  
2021 ◽  
Vol 10 (4) ◽  
pp. 873
Author(s):  
Francisco Javier Flor-Montalvo ◽  
Agustín Sánchez-Toledo Ledesma ◽  
Eduardo Martínez Cámara ◽  
Emilio Jiménez-Macías ◽  
Jorge Luis García-Alcaraz ◽  
...  
Keyword(s):  
Life Cycle Assessment ◽  
Life Cycle ◽  
Raw Materials ◽  
Lca Methodology ◽  
Significant Difference ◽  
Different Dimensions ◽  
The Impact ◽  
Different Thickness ◽  
Cork Stoppers ◽  
Wine Bottle

Natural stoppers are a magnificent closure for the production of aging wines and unique wines, whose application is limited by the availability of raw materials and more specifically of cork sheets of different thickness and quality. The growing demand for quality wine bottle closures leads to the search for alternative stopper production. The two-piece stopper is an alternative since it uses non-usable plates in a conventional way for the production of quality caps. The present study has analyzed the impact of the manufacture of these two-piece stoppers using different methodologies and for different dimensions by developing an LCA (Life Cycle Assessment), concluding that the process phases of the plate, its boiling, and its stabilization, are the phases with the greatest impact. Likewise, it is detected that the impacts in all phases are relatively similar (for one kg of net cork produced), although the volumetric difference between these stoppers represents a significant difference in impacts for each unit produced.

scholarly journals Genome-wide transcriptome profiling uncovers differential miRNAs and lncRNAs in ovaries of Hu sheep at different developmental stages

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Samina Shabbir ◽  
Prerona Boruah ◽  
Lingli Xie ◽  
Muhammad Fakhar-e-Alam Kulyar ◽  
Mohsin Nawaz ◽  
...  
Keyword(s):  
Target Genes ◽  
Expression Profiles ◽  
Ovarian Follicle ◽  
Follicular Development ◽  
Differentially Expressed ◽  
Ovary Development ◽  
Estrogen Metabolism ◽  
Genome Wide ◽  
Micro Rnas ◽  
Hu Sheep

AbstractOvary development is an important determinant of the procreative capacity of female animals. Here, we performed genome-wide sequencing of long non-coding RNAs (lncRNAs) and mRNAs on ovaries of 1, 3 and 8 months old Hu sheep to assess their expression profiles and roles in ovarian development. We identified 37,309 lncRNAs, 45,404 messenger RNAs (mRNAs) and 330 novel micro RNAs (miRNAs) from the transcriptomic analysis. Six thousand, seven hundred and sixteen (6716) mRNAs and 1972 lncRNAs were significantly and differentially expressed in ovaries of 1 month and 3 months old Hu sheep (H1 vs H3). These mRNAs and target genes of lncRNAs were primarily enriched in the TGF-β and PI3K-Akt signalling pathways which are closely associated with ovarian follicular development and steroid hormone biosynthesis regulation. We identified MSTRG.162061.1, MSTRG.222844.7, MSTRG.335777.1, MSTRG.334059.16, MSTRG.188947.6 and MSTRG.24344.3 as vital genes in ovary development by regulating CTNNB1, CCNA2, CDK2, CDC20, CDK1 and EGFR expressions. A total of 2903 mRNAs and 636 lncRNAs were differentially expressed in 3 and 8 months old ovaries of Hu sheep (H3 vs H8); and were predominantly enriched in PI3K-Akt, progesterone-mediated oocyte maturation, estrogen metabolism, ovulation from the ovarian follicle and oogenesis pathways. These lncRNAs were also found to regulate FGF7, PRLR, PTK2, AMH and INHBA expressions during follicular development. Our result indicates the identified genes participate in the development of the final stages of follicles and ovary development in Hu sheep.

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