Treatment-induced neuroendocrine prostate cancer and de novo neuroendocrine prostate cancer:Identification,prognosis and survival,genetic and epigenetic factors

Neuroendocrine prostate cancer(NEPC)shows an aggressive behavior compared to prostate cancer(PCa),also known as prostate adenocarcinoma.Scanty foci in PCa can harbor genetic alternation that can arise in a heterogeneity of prostate cancer.NEPC may arise de novo or develop following androgen deprivation therapy(ADT).NEPC that arise following ADT has the nomenclature“treatmentemerging/induced NEPC(t-NEPC)”.t-NEPC would be anticipated in castration resistant prostate cancer(CRPC)and metastatic PCa.t-NEPC is characterized by low or absent androgen receptor(AR)expression,independence of AR signaling,and gain of neuroendocrine phenotype.t-NEPC is an aggressive metastatic tumor,develops from PCa in response to drug induced ADT,and shows very short response to conventional therapy.t-NEPC occurs in 10%-17%of patients with CRPC.De novo NEPC is rare and is accounting for less than 2%of all PCa.The molecular mechanisms underlying the trans-differentiation from CRPC to t-NEPC are not fully elucidated.Sphingosine kinase 1 plays a significant role in t-NEPC development.Although neuroendocrine markers:Synaptophysin,chromogranin A,and insulinoma associated protein 1(INSM1)are expressed in t-NEPC,they are non-specific for diagnosis,prognosis,and follow-up of therapy.t-NEPC shows enriched genomic alteration in tumor protein P53(TP53)and retinoblastoma 1(RB1).There are evidences suggest that t-NEPC might develop through epigenetic evolution.There are genomic,epigenetic,and transcriptional alterations that are reported to be involved in development of t-NEPC.Knock-outs of TP53 and RB1 were found to contribute in development of t-NEPC.PCa is resistant to immunotherapy,and at present there are running trials to approach immunotherapy for PCa,CRPC,and t-NEPC.

Studies on Ultra-dry Storage and Genetic Stability of Vegetable Seeds

[Objective] To study the long-term ultra-dry storage method and genetic stability of vegetable seeds.[Method] Seeds of Lycopersicum esculentum,Raphanus satuvus and Apium graveolen.were chosen as material.The changes of seed vigor,viability and genetic stability after ultra-storage were discussed by studying the seed potentiality,shoot length,germination percentage and the chromosome aberration rate of root tip cells.[Results] Maintaining the low moisture content,different vegetable species had different storage effects of the long-term storage seeds under normal temperature.The Lycopersicum esculentum and Raphanus satuvus seeds were more suitable to ultra-dry storage at normal temperature,and could keep good genetic stability,while the seeds of Apium graveolen had bad performance.[Conclusion] This study established the foundation of studying ultra-dry storage of vegetable seeds.

Temperature is a cryptic factor shaping the geographical pattern of genetic variation in Ceratophyllum demersum across a subtropical freshwater lake

Macrophyte habitats exhibit remarkable heterogeneity,encompassing the spatial variation of abiotic and biotic components such as changes in water conditions and weather as well as anthropogenic stressors.Environmental factors are thought to be important drivers shaping the genetic and epigenetic variation of aquatic plants.However,the links among genetic diversity,epigenetic variation,and environmental variables remain largely unclear,especially for clonal aquatic plants.Here,we performed population genetic and epigenetic analyses in conjunction with habitat discrimination to elucidate the environmental factors driving intraspecies genetic and epigenetic variation in hornwort(Ceratophyllum demersum)in a subtropical lake.Environmental factors were highly correlated with the genetic and epigenetic variation of C.demersum,with temperature being a key driver of the genetic variation.Lower temperature was detected to be correlated with greater genetic and epigenetic variation.Genetic and epigenetic variation were positively driven by water temperature,but were negatively affected by ambient air temperature.These findings indicate that the genetic and epigenetic variation of this clonal aquatic herb is not related to the geographic feature but is instead driven by environmental conditions,and demonstrate the effects of temperature on local genetic and epigenetic variation in aquatic systems.

Genetic screening of liver cancer:State of the art

Liver cancer,primarily hepatocellular carcinoma,remains a global health challenge with rising incidence and limited therapeutic options.Genetic factors play a pivotal role in the development and progression of liver cancer.This state-of-the-art paper provides a comprehensive review of the current landscape of genetic screening strategies for liver cancer.We discuss the genetic underpinnings of liver cancer,emphasizing the critical role of risk-associated genetic variants,somatic mutations,and epigenetic alterations.We also explore the intricate interplay between environmental factors and genetics,highlighting how genetic screening can aid in risk stratification and early detection via using liquid biopsy,and advancements in high-throughput sequencing technologies.By synthesizing the latest research findings,we aim to provide a comprehensive overview of the state-of-the-art genetic screening methods for liver cancer,shedding light on their potential to revolutionize early detection,risk assessment,and targeted therapies in the fight against this devastating disease.

Genetic and epigenetic biomarkers for diagnosis, prognosis and treatment of colorectal cancer

Colorectal cancer(CRC)is one of the most common cancer worldwide and results from the accumulation of mutations and epimutations in colonic mucosa cells ultimately leading to cell proliferation and metastasis.Unfortunately,CRC prognosis is still poor and the search of novel diagnostic and prognostic biomarkers is highly desired to prevent CRC-related deaths.The present article aims to summarize the most recent findings concerning the use of either genetic or epigenetic(mainly related to DNA methylation)biomarkers for CRC diagnosis,prognosis,and response to treatment.Recent large-scale DNA methylation studies suggest that CRC can be divided into several subtypes according to the frequency of DNA methylation and those of mutations in key CRC genes,and that this is reflected by different prognostic outcomes.Increasing evidence suggests that the analysis of DNA methylation in blood or fecal specimens could represent a valuable non-invasive diagnostic tool for CRC.Moreover,a broad spectrum of studies indicates that the inter-individual response to chemotherapeutic treatments depends on both epigenetic modifications and genetic mutations occurring in colorectal cancer cells,thereby opening the way for a personalized medicine.Overall,combining genetic and epigenetic data might represent the most promising tool for a proper diagnostic,prognostic and therapeutic approach.

Genetic and epigenetic risks of intracytoplasmic sperm injection method

Pregnancies achieved by assisted reproduction technologies, particularly by intracytoplasmic sperm injection （ICSI） procedures, are susceptible to genetic risks inherent to the male population treated with ICSI and additional risks inherent to this innovative procedure. The documented, as well as the theoretical, risks are discussed in the present review study. These risks mainly represent thatconsequences of the genetic abnormalities underlying male subfertility （or infertility） and might become stimulators for the development of novel approaches and applications in the treatment of infertility. In addition, risks with a polygenic background appearing at birth as congenital anomalies and other theoretical or stochastic risks are discussed. Recent data suggest that assisted reproductive technology might also affect epigenetic characteristics of the male gamete, the female gamete, or might have an impact on early embryogenesis. It might be also associated with an increased risk for genomic imprinting abnormalities.

Search for circular and noncircular critical slip surfaces in slope stability analysis by hybrid genetic algorithm

A local improvement procedure based on tabu search(TS) was incorporated into a basic genetic algorithm(GA) and a global optimal algorithm,i.e.,hybrid genetic algorithm(HGA) approach was used to search the circular and noncircular slip surfaces associated with their minimum safety factors.The slope safety factors of circular and noncircular critical slip surfaces were calculated by the simplified Bishop method and an improved Morgenstern-Price method which can be conveniently programmed,respectively.Comparisons with other methods were made which indicate the high efficiency and accuracy of the HGA approach.The HGA approach was used to calculate one case example and the results demonstrated its applicability to practical engineering.

Analysis of drought tolerance and genetic and epigenetic variations in a somatic hybrid between Ipomoea batatas (L.) Lam. and I. triloba L.

The somatic hybrid KT1 was previously obtained from protoplast fusion between sweetpotato （Ipomoea batatas （L.） Lam.） cv. Kokei No. 14 and its wild relative I. triloba L. However, its genetic and epigenetic variations have not been investigated. This study showed that KT1 exhibited significantly higher drought tolerance compared to the cultivated parent Kokei No. 14. The content of proline and activities of superoxide dismutase （SOD） and photosynthesis were significantly increased, while malonaldehyde （MDA） content was significantly decreased compared to Kokei No. 14 under drought stress. KT1 also showed higher expression level of well-known drought stress-responsive genes compared to Kokei No. 14 under drought stress. Amplified fragment length polymorphism （AFLP） and methylation-sensitive amplified polymorphism （MSAP） analyses indicated that KT1 had AFLP and MSAP band patterns consisting of both parent specific bands and changed bands. Fur- ther analysis demonstrated that in KT1. the proportions of Kokei No. 14 specific genome components and methylation sites were much greater than those of I. triloba. KT1 had the same chloroplast and mitochondrial genomes as Kokei No. 14. These results will aid in developing the useful genes ofI. triloba and understanding the evolution and phylogeny of the cultivated sweetpotato.

Genetic and agronomic traits stability of marker-free transgenic wheat plants generated from Agrobacterium-mediated co-transformation in T2 and T3 generations

Genetically modified wheat has not been commercially utilized in agriculture largely due to regulatory hurdles associated with traditional transformation methods. Development of marker-free transgenic wheat plants will help to facilitate biosafety evaluation and the eventual environmental release of transgenic wheat varieties. In this study, the marker-free transgenic wheat plants previously obtained by Agrobacterium-mediated co-transformation of double T-DNAs vector were identified by fluorescence in situ hybridization(FISH) in the T1 generation, and their genetic stability and agronomic traits were analyzed in T2 and T3 generations. FISH analysis indicated that the transgene often integrated into a position at the distal region of wheat chromosomes. Furthermore, we show that the GUS transgene was stably inherited in the marker-free transgenic plants in T1 to T3 generations. No significant differences in agronomic traits or grain characteristics were observed in T3 generation, with the exception of a small variation in spike length and grains per spike in a few lines. The selection marker of bar gene was not found in the transgenic plants through T1 to T3 generations. The results from this investigation lay a solid foundation for the potential application of the marker-free transgenic wheat plants achieved through the co-transformation of double T-DNAs vector by Agrobacterium in agriculture after biosafty evaluation.

Genetic Analysis of Early Generation Stability in Rice

The mechanism of early generation stability （EGS） in rice was studied via genetic analysis. Three types of crosses were made, namely between EGS varieties, EGS and conventional rice variety, and conventional rice varieties. The genetic analysis was based on the stable lines in F2 population. The stable lines may appear from some combinations of EGS rice crossing with each other and EGS rice crossing with conventional varieties at different frequencies, but stable lines didn＇t appear in conventional varieties crossing with conventional varieties. Genetic analysis results indicated that the EGS phenomena should just exist in special rice materials, and the frequency of stable lines was closely related to the EGS traits of parents. The EGS traits were neither qualitative nor quantitative traits, and they were controlled by neither dominant genes nor recessive genes. The EGS traits might be inherited by F1 single plant, and the traits of F3 and F4 were corresponded to those of F2 population, i.e. F3 and F4 lines derived from non-segregating F2 showed uniform agronomic traits, and those from segregating F2.did not. The agronomic traits of EGS lines were consistent with those of F1 single plant. On the other hand, when EGS lines occurred, the segregating lines in Mendelian manner were also observed in all F2 population of the same combination. It was suggested that the reason why the stable strains occurred might be a special factor to control （open/close） gene at the beginning of cell division in zygote, resulting in closing mitosis and opening somatic reduction. The somatic reduction of zygote resulted in recombination and homozygosity forming in F1 single plant, and some lines with uniform agronomic traits were observed in some lines of F2 population.

Evaluation of biomarkers, genetic mutations, and epigenetic modifications in early diagnosis of pancreatic cancer

BACKGROUND Pancreatic cancer(PC)is one of the deadliest malignancies with an alarming mortality rate.Despite significant advancement in diagnostics and therapeutics,early diagnosis remains elusive causing poor prognosis,marred by mutations and epigenetic modifications in key genes which contribute to disease progression.AIM To evaluate the various biological tumor markers collectively for early diagnosis which could act as prognostic biomarkers and helps in future therapeutics of PC in Kashmir valley.METHODS A total of 50 confirmed PC cases were included in the study to evaluate the levels of carbohydrate antigen 19-9(CA 19-9),tissue polypeptide specific antigen(TPS),carcinoembryonic antigen(CEA),vascular endothelial growth factor-A(VEGF-A),and epidermal growth factor receptor(EGFR).Mutational analysis was performed to evaluate the mutations in Kirsten rat sarcoma(KRAS),Breast cancer type 2(BRCA-2),and deleted in pancreatic cancer-4(DPC-4)genes.However,epigenetic modifications(methylation of CpG islands)were performed in the promoter regions of cyclin-dependent kinase inhibitor 2A(p16;CDKN2A),MutL homolog 1(hMLH1),and Ras association domain-containing protein 1(RASSF1A)genes.RESULTS We found significantly elevated levels of biological markers CA 19-9(P≤0.05),TPS(P≤0.05),CEA(P≤0.001),and VEGF(P≤0.001).Molecular genetic analysis revealed that KRAS gene mutation is predominant in codon 12(16 subjects,P≤0.05),and 13(12 subjects,P≤0.05).However,we did not find a mutation in DPC-4(1203G>T)and BRCA-2(617delT)genes.Furthermore,epigenetic modification revealed that CpG methylation in 21(P≤0.05)and 4 subjects in the promoter regions of the p16 and hMLH1 gene,respectively.CONCLUSION In conclusion,CA 19-9,TPS,CEA,and VEGF levels were significantly elevated and collectively have potential as diagnostic and prognostic markers in PC.Global data of mutation in the KRAS gene commonly in codon 12 and rare in codon 13 could augment the predisposition towards PC.Additionally,methylation of the p16 gene could also modulate transcription of genes thereby increasing the predisposition and susceptibility towards PC.

Diabetes--Role of epigenetics,genetics,and physiological factors

Cells of organ systems are endowed with a relatively similar genome while epigenome niches keep varying chronologically and defined explicitly in the respective tissues.The genome of an individual is always influenced by parental,embryonic,tissue-specific,and environmental epigenomes and the same must have been the possible reason for invariable inquiries relating to familial,environmental and life style patterns in the preliminary investigations of diabetic complications.Unprecedented methylation of lysine residues of histones and cytosines of CpG islands of promoter DNA impede the transcription of genes and homocysteine is the metabolic key player of methyl groups.Gck and COX7A1 are the 2 examples in the present review to elucidate the epigenetic influence on the onset of diabetes.miRNAs are additional promising cellular components influencing both at transcriptional and translational levels and promoting either in favour or against(i.e.,feed back) TFs,signaling factors and proteins through their pliotropic effects and thus are reported to regulate cellular physiology.miR-124a and miR-9 are primarily endemic to nervous tissue and they are now being exploited in islets for their function in executing exocytosis of insulin,which of course is one of the fundamental canons of diabetes.miR-375 persuades beta cells for glucose-induced insulin gene expression.The current approach to evaluate the constellation of genes and their products involved in diabetes in huge number of samples through GWA studies may unravel intricacies involved in the management of diabetes and its associated consequences.

Holistic paradigm in carcinogenesis:Genetics,epigenetics,immunity,inflammation and oral infections

Recent debate among the experts of cancer research regarding the main causes of carcinogenesis encouraged us to review the etiology of cancer pathogenesis. The somatic mutation theory attributes carcinogenesis to random errors in DNA multiplication while the tissue organization field theory ascribes causation to environmental factors. We recognize complexity in cancer pathogenesis and accept the premise of both DNA multiplication errors and environmental factors in cancer development. Furthermore, it should also be noted that the combination of these factors and the relative importance of the each differ in various types of cancers. For example, in some cancers, genetics plays a prominent role while in others environment such as obesity plays a much stronger role. Additionally, the cancer mitigating factors should also be considered. The balance of cancer-enhancing and cancer-suppressing forces determines the cancer incidence. Ultimately, identifying the lifestyle factors that revise somatic mutations or epigenetic alterations will lead to a clear understanding of pathogenic mechanisms of cancer and to the optimal preventive strategies. This narrative review evaluates the published evidence on carcinogenesis pertaining to the whole organism(thus, holistic) incorporating genetics, epigenetics, immunology, inflammation and infections with emphasis on oral infections.

Molecular approach to genetic and epigenetic pathogenesis of early-onset colorectal cancer

Colorectal cancer(CRC) is the third most frequent cancer type and the incidence of this disease is increasing gradually per year in individuals younger than 50 years old. The current knowledge is that early-onset CRC(EOCRC) cases are heterogeneous population that includes both hereditary and sporadic forms of the CRC. Although EOCRC cases have some distinguishing clinical and pathological features than elder age CRC, the molecular mechanism underlying the EOCRC is poorly clarified. Given the significance of CRC in the world of medicine, the present review will focus on the recent knowledge in the molecular basis of genetic and epigenetic mechanism of the hereditary forms of EOCRC, which includes Lynch syndrome, Familial CRC type X, Familial adenomatous polyposis, Mut YH-associated polyposis, Juvenile polyposis syndrome, Peutz-Jeghers Syndrome and sporadic forms of EOCRC. Recent findings about molecular genetics and epigenetic basis of EOCRC gave rise to new alternative therapy protocols. Although exact diagnosis of these cases still remains complicated, the present review paves way for better predictions and contributes to more accurate diagnostic and therapeutic strategies into clinical approach.

Hsp90 at the crossroads of genetics and epigenetics

Hsp90 is a specialized molecular chaperone that is capable of buffering the expression of abnormal phenotypes. Inhibition of Hsp90 activity results in the expression of these phenotypes that are otherwise masked. Selection of offspring from the crossing of affected progenies results in inheritance and enrichment of these phenotypes, which can become independent of their original stimuli. The current combined evidence favours a model involving the interplay between genetics and epigenetics. The recent proteomics efforts to characterize the Hsp90 interaction networks provide further clues into the molecular mechanisms behind this complex phenomenon. This review summarizes the most recent experimental observations and briefly discusses the genetic and epigenetic views used in explaining the different observations.

Medium effects on micropropagation and genetic stability of Citrullus lanatus oleaginous type

To regenerate adventitious shoots from the cotyledon proximal parts of Citrullus lanatus (Thunb.) Matsum. and Nakai ssp. mucosospermus (Fursa) oleaginous type, different concentrations of MS mineral elements, sucrose, 6-benzylaminopurine (BAP) and agar were tested. Shoot induction proved to depend on the interaction between levels of sucrose, BAP and MS mineral elements in the medium. The medium containing 3/2 strength of MS mineral elements, 35 g/l sucrose and 1 mg/l BAP solidified with 6 g/l agar allowed the production of numerous shoots without a callus phase. After 3 weeks of culture, 76.7% of the cotyledon proximal parts induced shoots with an average of 12.26 shoots per explant and a mean shoot length of 17.13 mm. The induced shoots were directly rooted and thus complete plants ready for acclimatization were obtained using a two steps procedure. Depending on the genotype, the shoot induction from cotyledon proximal parts ranged from 54% to 96%. Rooted plantlets were acclimatized and transferred to field, where they grew well, developed flowers and fruits like seeded plants. The assessment of the genetic stability of the in-vitro-regenerated plantlets by means of an Amplified Fragment Length Polymorphism (AFLP) analysis with the combination of 5 primers revealed no differences between regenerated plantlets and mother plants.

Non-alcoholic fatty liver disease and the impact of genetic,epigenetic and environmental factors in the offspring

Non-alcoholic fatty liver disease(NAFLD)is the most common chronic liver disease worldwide and is strongly associated with metabolic deregulation.More recently,a significant impact of parental NAFLD in the offspring was demonstrated and has been widely discussed.However,pathogenetic pathways implicated in the inheritance by the offspring and relatives are still under debate.Probably,multiple mechanisms are involved as well as in NAFLD pathogenesis itself.Among the multifactorial involved mechanisms,genetic,epigenetic and environmental backgrounds are strongly related to NAFLD development in the offspring.Thus,based on recent evidence from the available literature concerning genetic,epigenetic and environmental disease modifiers,this review aimed to discuss the relationship between parental NAFLD and its impact on the offspring.

AFLP Analysis of Genetic Stability of Sugarcane Tissue Culture Clones

[Objectives] This study was conducted to better understand the variation law of sugarcane clones during tissue culture process,and to provide a reference for rapid propagation and detection of healthy sugarcane seedlings.[Methods] The genetic stability of tissue culture clones of three sugarcane varieties was analyzed using the AFLP molecular marker technique.[Results]The average number of polymorphic loci was 19. 58 for each primer pair,and the percentage of polymorphic loci was 41. 74%. Compared with the donor varieties,all tissue culture materials were mutated. There were 3-16 missing bands,with an average of 5. 2 bands,and there were 0-17 increased bands,with an average of 3. 3 bands. The total number of missing and increased bands was 4-33,with an average of 8. 5. The band difference rates were in the range of 0. 009 4%-0. 077 6%,with an average of 0. 020 6%. The genetic similarity coefficients between materials ranged from 0. 685 6 to 0. 998 2,with an average of 0. 818 4. The three sugarcane varieties and their tissue culture clones were clustered into three groups.[Conclusions] Although variations occur in tissue culture,the variations are not too obvious,and the genetic stability is relatively high. It is recommended to minimize the number of subculture generations and cultivation time to reduce the occurrence of variation during tissue culture for rapid propagation of sugarcane seedlings.

Design of robust stability augmentation system for an airship using genetic algorithm

This paper presents the design of stability augmentation system (SAS) for the airship, which is robust with respect to parametric plant uncertainties. A robust pole placement approach is adopted in the design, which uses genetic algorithm (GA) as the optimization tool to derive the most robust solution of the state-feedback gain matrix K. The method can guarantee the resulting closed-loop poles to remain in a specified allocation region despite plant parameter uncertainty. Thus, the longitudinal stability of the airship is augmented by robustly assigning the closed-loop poles in a prescribed region of the left half s-plane.

Improvement of Power System Stability by Static Var Compensator and Tuning Employing Genetic Algorithm

The use of power systems as close to their operating limits can cause instability if a disturbance is occurred. The damping of the system’s oscillations can be obtained by conventional means such as voltage and speed regulation but also by Flexible AC Transmission System devices (FACTS). These devices are increasingly used in power systems. This paper presents a systematic procedure for modelling and simulation of a single-machine infinite-bus power system installed with a Static VAR Compensator (SVC). So the impact of the SVC on power system stability can be reasonably evaluated. Genetic algorithm (GA) optimization technique is applied to design robust power system stabilizer and SVC-controllers for single-machine infinite-bus (SMIB) and is employed to search for optimal controller parameters.