Development of trinucleotide (GGC)n SSR markers in peanut ( Arachis hypogaea L.)

Cultivated peanut ( Arachis hypogaea L.) is an oilseed crop of economic importance. It is native to South America, and it is grown extensively in the semi-arid tropics of Asia, Africa, and Latin America. Given an extremely narrow genetic base, efforts are being made to develop simple sequence repeat (SSR) markers to provide useful genetic and genomic tools for the peanut research community. A SSR-enriched library to isolate trinucleotide (GGC)n SSRs in peanut was constructed. A total of 143 unique sequences containing (GGC)n repeats were identified. One hundred thirty eight primer pairs were successfully designed at the flanking regions of SSRs. A suitable polymerase was chosen to amplify these GC-rich sequences. Although a low level of polymorphism was observed in cultivated peanut by these new developed SSRs, a high level of transferability to wild species would be beneficial to increasing the number of SSRs in wild species

Phylogenomics and morphological evolution of the mega-diverse genus Artemisia (Asteraceae: Anthemideae): implications for its circumscription and infrageneric taxonomy

Background and Aims Artemisia is a mega-diverse genus consisting of ~400 species. Despite its medicinal importance and ecological significance, a well-resolved phylogeny for global Artemisia, a natural generic delimitation and infrageneric taxonomy remain missing, owing to the obstructions from limited taxon sampling and insufficient information on DNA markers. Its morphological characters, such as capitulum, life form and leaf, show marked variations and are widely used in its infrageneric taxonomy. However, their evolution within Artemisia is poorly understood. Here, we aimed to reconstruct a well-resolved phylogeny for global Artemisia via a phylogenomic approach, to infer the evolutionary patterns of its key morphological characters and to update its circumscription and infrageneric taxonomy. Methods We sampled 228 species (258 samples) of Artemisia and its allies from both fresh and herbarium collections, covering all the subgenera and its main geographical areas, and conducted a phylogenomic analysis based on nuclear single nucleotide polymorphisms (SNPs) obtained from genome skimming data. Based on the phylogenetic framework, we inferred the possible evolutionary patterns of six key morphological characters widely used in its previous taxonomy. Key Results The genus Kaschgaria was revealed to be nested in Artemisia with strong support. A well-resolved phylogeny of Artemisia consisting of eight highly supported clades was recovered, two of which were identified for the first time. Most of the previously recognized subgenera were not supported as monophyletic. Evolutionary inferences based on the six morphological characters showed that different states of these characters originated independently more than once. Conclusions The circumscription of Artemisia is enlarged to include the genus Kaschgaria. The morphological characters traditionally used for the infrageneric taxonomy of Artemisia do not match the new phylogenetic tree. They experienced a more complex evolutionary history than previously thought. We propose a revised infrageneric taxonomy of the newly circumscribed Artemisia, with eight recognized subgenera to accommodate the new results.This work was supported by the National Natural Science Foundation of China (grant nos. 31870179, 31570204, 31270237 and J1310002), the International Partnership Program (grant no. 151853KYSB20190027), Sino-Africa Joint Research Center (grant no. SAJC201614), Key technology projects of Jiangxi Province's major scientific and technological research and development project (grant no. 20223AAF01007), Survey of Wildlife Resources in Key Areas of Tibet (grant no. ZL202203601) and National Plant Specimen Resource Center (grant no. E0117G1001) of the Chinese Academy of Sciences, Key Project at Central Government Level: The Ability Establishment of Sustainable Use of Valuable Chinese Medicine Resources (grant no. 2060302) and Project of the Central Siberian Botanical Garden of the Siberian Branch of the Russian Academy of Sciences (grant no. AAAA-A21-121011290024-5).Abstract INTRODUCTION MATERIALS AND METHODS RESULTS DISCUSSION Conclusions SUPPLEMENTARY DATA FUNDING ACKNOWLEDGEMENTS CONFLICT OF INTEREST LITERATURE CITED Supplementary dat

Analysis of Influencing Factors and Prevention of Coal Wall Deformation and Failure of Coal Wall in Caving Face with Large Mining Height: Case Study

The coal walls in a caving face with a tall mining height are prone to rib spalling, which leads to the phased cessation of the mining of the working face, causes heavy losses, and endangers the safety of underground workers. In order to prevent serious rib spalling accidents of coal walls in fully mechanized caving faces with a large mining height and to improve the prediction of and ability to control rib spalling, a load-bearing mechanical model of the roof–coal wall–support system was established based on the moment-balance relationship. The expressions for the deformation and stress distribution in a coal wall were calculated. Then, the influences of key factors on the horizontal displacement of the coal wall were investigated. A numerical simulation model of the working face was established, and an orthogonal test design was introduced. On this basis, the influences of four factors: cutting height, breaking position of the main roof, support strength, and sidewall protecting force of the support on the horizontal displacement and volume of a plastic zone of coal wall, were analyzed. Moreover, their order of importance was ranked on the basis of sensitivity. Based on the engineering conditions and production practices in the Cuncaota II Coal Mine, key parameters for controlling and measures for preventing the rib spalling of the coal wall are proposed to guide practical actions

Distribution and Evolution Law of Void Fraction in the Goaf of Longwall Mining in a Coal Mine: Calculation Method and Numerical Simulation Verification

Many voids are produced in the mining process of ore-bearing strata. To explore the development law of voids after mining coal-bearing strata, a theoretical model was established to derive the overall distribution and shape of voids in the goaf. The above theory was verified using the numerical calculation method. The turning point of the void change was found. The research results show that the void in the goaf was widely distributed around the stope, and the overall void ratio was affected by the mining conditions, such as the mining height and face length. While advancing the working face, the dynamic development of the void first increased and then decreased. At first, the distribution of the void ratio in the goaf was between 0.293 and 0.889 under specific geological conditions, and then, with the advancement of the working face, a large void ratio was reserved at 0~40 m behind the working face. When the working face was advanced to the first roof collapse length, the void fractures continued to decline. Using the above voids, the backfilling of solid mine waste can be effectively realized, and the ecological environment can be protected

Interleukin-6 induces fat loss in cancer cachexia by promoting white adipose tissue lipolysis and browning

Abstract Background Cancer cachexia is a progressive and multi-factorial metabolic syndrome characterized by loss of adipose tissue and skeletal muscle. White adipose tissue (WAT) lipolysis and white-to-brown transdifferentiation of WAT (WAT browning) are proposed to contribute to WAT atrophy in cancer cachexia. Chronic inflammation, mediated by cytokines such as tumor necrosis factor alpha (TNF-α) and interleukin-6 (IL-6), has been reported to promote cancer cachexia. However, whether chronic inflammation promotes cancer cachexia by regulating WAT metabolism and the underlying mechanism remains unclear. Methods In this study, we first analyzed the association between chronic inflammation and WAT metabolism in gastric and colorectal cancer cachectic patients. In cachectic mice treated with anti-IL-6 receptor antibody, we clarified whether WAT lipolysis and browning were regulated by IL-6. Results Clinical analyses showed positive significant association between serum IL-6 and free fatty acid (FFA) both in early- and late-stage cancer cachexia. However, serum TNF-α was positively associated with serum FFA in the early- but not late-stage cachexia. WAT lipolysis was increased in early- and late-stage cachexia, while WAT browning was detected only in late-stage cachexia. Anti-IL-6 receptor antibody inhibited WAT lipolysis and browning in cachectic mice. Conclusions Based on these findings, we conclude that chronic inflammation (especially that mediated by IL-6) might promote cancer cachexia by regulating WAT lipolysis in early-stage cachexia and browning in late-stage cachexia

Microsatellites as DNA markers in cultivated peanut (<it>Arachis hypogaea </it>L.)

Abstract Background Genomic research of cultivated peanut has lagged behind other crop species because of the paucity of polymorphic DNA markers found in this crop. It is necessary to identify additional DNA markers for further genetic research in peanut. Results Microsatellite markers in cultivated peanut were developed using the SSR enrichment procedure. The results showed that the GA/CT repeat was the most frequently dispersed microsatellite in peanut. The primer pairs were designed for fifty-six different microsatellites, 19 of which showed a polymorphism among the genotypes studied. The average number of alleles per locus was 4.25, and up to 14 alleles were found at one locus. This suggests that microsatellite DNA markers produce a higher level of DNA polymorphism than other DNA markers in cultivated peanut. Conclusions It is desirable to isolate and characterize more DNA markers in cultivated peanut for more productive genomic studies, such as genetic mapping, marker-assisted selection, and gene discovery. The development of microsatellite markers holds a promise for such studies.</p

Development of trinucleotide (GGC)n SSR markers in peanut ( Arachis hypogaea L.)

Cultivated peanut ( Arachis hypogaea L.) is an oilseed crop of economic importance. It is native to South America, and it is grown extensively in the semi-arid tropics of Asia, Africa, and Latin America. Given an extremely narrow genetic base, efforts are being made to develop simple sequence repeat (SSR) markers to provide useful genetic and genomic tools for the peanut research community. A SSR-enriched library to isolate trinucleotide (GGC)n SSRs in peanut was constructed. A total of 143 unique sequences containing (GGC)n repeats were identified. One hundred thirty eight primer pairs were successfully designed at the flanking regions of SSRs. A suitable polymerase was chosen to amplify these GC-rich sequences. Although a low level of polymorphism was observed in cultivated peanut by these new developed SSRs, a high level of transferability to wild species would be beneficial to increasing the number of SSRs in wild species