Identification and Molecular Analysis of Pathogenic Yeasts in Droppings of Domestic Pigeons in Beijing, China

Feral pigeons are known as reservoirs of pathogenic yeasts that cause opportunistic infections in human. In the outskirts of Beijing, China, pigeons are more frequently raised at homes than are encountered in public areas. Many studies have focused on the presence of pathogenic yeasts in the excreta (fresh or withered) of a variety kinds of birds, pigeon crop and cloacae. One hundred and forty-three samples of fresh droppings were collected from three suburban pigeon-raising homes in an area of northern Beijing, China. The internal transcribed sequences (ITS) of all strains (except for 8 strains of Rhodotorula sp. ) were sequenced and compared with those of the databases of the National Center for Biotechnology Information website ( http://www.ncbi.nlm.nih.gov ) using the Basic Local Alignment Search Tool (BLAST). Yeasts representing 8 genera, Cryptococcus, Filobasidium, Rhodotorula, Candida, Debaryomyces, Saccaromyces, Trichosporon and Sporidiobolus, were identified from 120 isolates. Cryptococcus was the most prolific genera represented by eight species. The populations of yeast species isolated from fresh pigeon droppings were different among homes. Although it is well established that Cryptococcus neoformans exists mainly in old pigeon guano, several C. neoformans strains were still isolated from fresh pigeon excreta, providing a clue that live cryptococcal cells could move through the gastrointestinal tract of the pigeons. Eight genera identified from fresh droppings of domestic pigeons further confirm that pigeons serve as reservoirs, carriers and even spreaders of Cryptococcus species and other medically significant yeasts. The proportion of pathogenic yeasts in all isolates is more than 90 %.     

腹侧黄斑小鼠的部分特征及其突变基因的染色体定位

腹侧黄斑小鼠(VYSlac)是在B6小鼠繁殖生产过程中被发现、分离的突变系小鼠,呈单基因显性遗传,其头颈及躯干的腹侧为黄色。VYSlac腹部表皮多巴(+)黑色素细胞及毛囊内黑色素较其背景品系B6少;腹部毛发颜色浅黄、多数无黑色素沉积,但结构正常。通过微卫星标记与48只F2小鼠(VYSlacD2F1回交D2)的连锁分析发现,突变基因与D2Mit229间的LOD值为5.79,确定连锁。随后,在突变基因附近反复多次筛选新的微卫星或SNP标记,通过对196例F2小鼠的多次连锁分析,将突变基因所在区域缩小到rs13476833(距着丝粒149804749bp)与rs27310903(距着丝粒155060764bp)间约5256015bp的范围内。     

The growth characteristics and yield potential of rice (Oryza sativa) under non‐flooded irrigation in arid region

The objectives of this field experiment were to study the growth characteristics and yield potential of rice plants under non‐flooded irrigation in arid area. Non‐flooded treatments included drip irrigation with plastic mulching treatments (DIs), furrow irrigation with plastic mulching treatment (FIM) and furrow irrigation with non‐mulching treatment (FIN). Conventional flooded cultivation (F) was check treatment (CK). The four drip irrigation treatments differed in the amount of water applied before and after panicle initiation. Root length density, leaf dry weight, shoot dry weight and root activity were generally higher in the non‐flood‐irrigated treatments (especially the drip‐irrigated treatments) than in the flood‐irrigated treatment at mid‐tillering. However, the growth and development of rice plants were limited after jointing in the non‐flooded irrigation treatments. Increasing the root/shoot ratio and root length density in the 20–40 cm depth and decreasing specific root length at 0–20 cm soil layer were important mechanisms for helping the rice plants to adapt to the non‐flooded environmental stresses. Finally, the grain yield in the non‐flooded irrigation treatments was lower than that in the F treatment. These low yields were mainly attributed to the low root length density at 0–20 cm depth and root activity. Generally speaking, the restricted degrees in the DIs were smaller than that in the FIM and FIN treatments. Among the DIs, both the highest grain yield (8223–8900 kg ha^?1) and the highest water use efficiency (WUE) (0.63) were observed when the soil water content was kept at ?30 kPa before panicle initiation and at ?15 kPa after panicle initiation (referred to as the DI2 treatment). The yield in the DI2 treatment was not significantly different than that in the flood‐irrigated treatment. However, WUE was 2.5 times higher in the DI2 treatment than in the F treatment. These results suggest that drip irrigation technology can be considered as a better water‐saving cultivation of rice plants in arid region.     

Identification of dynamic signatures associated with smoking‐related squamous cell lung cancer and chronic obstructive pulmonary disease

Chronic obstructive pulmonary disease (COPD) is a risk factor for the development of lung cancer. The aim of this study was to identify early diagnosis biomarkers for lung squamous cell carcinoma (SQCC) in COPD patients and to determine the potential pathogenetic mechanisms. The GSE12472 data set was downloaded from the Gene Expression Omnibus database. Differentially co‐expressed links (DLs) and differentially expressed genes (DEGs) in both COPD and normal tissues, or in both SQCC + COPD and COPD samples were used to construct a dynamic network associated with high‐risk genes for the SQCC pathogenetic process. Enrichment analysis was performed based on Gene Ontology annotations and Kyoto Encyclopedia of Genes and Genomes pathway analysis. We used the gene expression data and the clinical information to identify the co‐expression modules based on weighted gene co‐expression network analysis (WGCNA). In total, 205 dynamic DEGs, 5034 DLs and one pathway including CDKN1A, TP53, RB1 and MYC were found to have correlations with the pathogenetic progress. The pathogenetic mechanisms shared by both SQCC and COPD are closely related to oxidative stress, the immune response and infection. WGCNA identified 11 co‐expression modules, where magenta and black were correlated with the “time to distant metastasis.” And the “surgery due to” was closely related to the brown and blue modules. In conclusion, a pathway that includes TP53, CDKN1A, RB1 and MYC may play a vital role in driving COPD towards SQCC. Inflammatory processes and the immune response participate in COPD‐related carcinogenesis.     

TDRD3 promotes DHX9 chromatin recruitment and R-loop resolution

R-loops, which consist of a DNA/RNA hybrid and a displaced single-stranded DNA (ssDNA), are increasingly recognized as critical regulators of chromatin biology. R-loops are particularly enriched at gene promoters, where they play important roles in regulating gene expression. However, the molecular mechanisms that control promoter-associated R-loops remain unclear. The epigenetic ‘reader’ Tudor domain-containing protein 3 (TDRD3), which recognizes methylarginine marks on histones and on the C-terminal domain of RNA polymerase II, was previously shown to recruit DNA topoisomerase 3B (TOP3B) to relax negatively supercoiled DNA and prevent R-loop formation. Here, we further characterize the function of TDRD3 in R-loop metabolism and introduce the DExH-box helicase 9 (DHX9) as a novel interaction partner of the TDRD3/TOP3B complex. TDRD3 directly interacts with DHX9 via its Tudor domain. This interaction is important for recruiting DHX9 to target gene promoters, where it resolves R-loops in a helicase activity-dependent manner to facilitate gene expression. Additionally, TDRD3 also stimulates the helicase activity of DHX9. This stimulation relies on the OB-fold of TDRD3, which likely binds the ssDNA in the R-loop structure. Thus, DHX9 functions together with TOP3B to suppress promoter-associated R-loops. Collectively, these findings reveal new functions of TDRD3 and provide important mechanistic insights into the regulation of R-loop metabolism.     

Neuromedin B and its receptor influence the activity of myometrial primary cells in vitro through regulation of Il6 expression via the Rela/p65 pathway in mice

The neuromedin B receptor (Nmbr) is an important physiological regulator of spontaneous activities and stress responses through different cascades as well as its autocrine and paracrine effects. Previous studies have revealed that neuromedin B (Nmb) and its receptor signal via the Rela (also known as p65)/Il6 pathway in a mouse model of pregnancy. This study investigated the mechanism of Nmbr signaling via the Rela/p65-Il6 pathway and regulation of the concentration of intracellular free calcium ([Ca(2+)](i)) during the onset of labor in primary mouse myometrial cell cultures isolated from mice in term labor. Data demonstrated Nmbr agonist-mediated upregulation of the DNA binding activity of Rela/p65, Il6 expression, and [Ca(2+)](i) in a concentration-dependent manner. Furthermore, a significant correlation was observed between DNA binding activity of Rela/p65 and Il6 expression. Moreover, this up-regulation was blocked by Nmbr and Rela/p65 knockdown, achieved by RNA interference (RNAi) technology. No significant differences were identified in the inhibition of Il6 expression as a result of Nmbr or Rela/p65 knockdown. However, significant differences were observed between the [Ca(2+)](i) in Rela/p65-specific group and that in the Nmbr-specific small interfering RNA (siRNA)-treated groups. These data demonstrated that the Nmb/Nmbr interaction in pregnant myometrial primary cells in vitro predominantly influenced uterine activity through regulation of Il6 expression via the Rela/p65 pathway, although the effects of Nmbr on [Ca(2+)](i) involved several pathways that remain to be elucidated.