Identification and characterization of differentially expressed miRNAs between bamboo shoot and rhizome shoot

Qun-Ying Jin,Hua-Zheng Peng,Er-Pei Lin,Nan Li,Dan-Ni Huang,Yan-Li Xu,Xi-Qi Hua,Kui-Hong Wang,Tang-Jun Zhu 한국식물학회 2016 Journal of Plant Biology Vol.59 No.4

As one of the largest members of Poaceae family, bamboo is a very important agricultural plant in the world. The development of bamboo shoot is very special and particularly significant to bamboo production. Understanding the developmental differences between bamboo shoot and rhizome shoot is extremely valuable for us to further elucidate the mechanism of bamboo shoot formation since both bamboo shoot and rhizome shoot develop directly from rhizome bud underground. In this paper, miRNA chips with 413 miRNA probes were used to compare miRNA expressions between bamboo shoot and rhizome shoot. The experiment revealed 64 bamboo shoot upregulated and 56 rhizome shoot up-regulated miRNAs which were classified into four major categories according to deep sequencing based target prediction. Meristem and morphological development related miRNAs were most important in bamboo shoot, especially miR171 and miR156 members. While in rhizome shoot the mainstream of miRNA expressions was metabolism and nutrition related ones, especially miR395 members. The meristem and morphological development related miRNAs in bamboo shoot showed some embryonic characteristics and suggested the participation of several phytohormones like gibberellin, cytokinin and auxin, which were absent in those miRNAs of rhizome shoot. Further qRT-PCR detections of 21 up-regulated miRNAs in bamboo seedlings indicated that 12 ones were regulated to varying degrees by some environmental factors. Among them, rhizome shoot upregulated osa-miR395b was the most environment-sensitive miRNA, particularly to dehydration. And the bamboo shoot up-regulated osa-miR399j proved uniquely and strongly induced by phosphor. The existence of multiple regulation sites from same miRNA suggested the probability of crosstalks among meristem development, metabolism and stress response during bamboo shoot and rhizome shoot development.

QTL mapping and identification of candidate genes for cold tolerance at the germination stage in wild rice

Pan Ying-Hua,Nong Bao-Xuan,Chen Lei,Yang Xing-Hai,Xia Xiu-Zhong,Zhang Zong-Qiong,Qing Dong-Jin,Gao Ju,Huang Cheng-Cui,Li Dan-Ting,Deng Guo-Fu 한국유전학회 2023 Genes & Genomics Vol.45 No.7

Background Cold damage stress significantly affects rice growth (germination and seedling) and causes serious losses in yield in temperate and high-altitude areas around the globe. Objective This study aimed to explore the cold tolerance (CT) locus of rice and create new cold-tolerant germplasm. We constructed a chromosome segment substitution line (CSSL) with strong CT and fine mapped quantitative trait loci (QTLs) associated with CT by performing the whole-genome resequencing of CSSL with phenotypes under cold treatment. Methods A chromosome CSSL, including 271 lines from a cross between the cold-tolerant wild rice Y11 (Oryza rufipogon Griff.) and the cold-sensitive rice variety GH998, was developed to map QTLs conferring CT at the germination stage. The whole-genome resequencing was performed on CSSL for mapping QTLs of associated with CT at the germination stage. Results A high-density linkage map of the CSSLs was developed using the whole-genome resequencing of 1484 bins. The QTL analysis using 615,466 single-nucleotide polymorphisms (SNPs) led to the identification of 2 QTLs related to germination rate at low-temperature on chromosome 8 (qCTG-8) and chromosome 11 (qCTG-11). The qCTG-8 and qCTG-11 explained 14.55% and 14.31% of the total phenotypic variation, respectively. We narrowed down qCTG-8 and qCTG-11 to 195.5 and 78.83-kb regions, respectively. The expression patterns of important candidate genes in different tissues, and of RNA-sequencing (RNA-seq) in CSSLs, were identified based on gene sequences in qCTG-8 and qCTG-11 cold-induced expression analysis. LOC_Os08g01120 and LOC_Os08g01390 were identified as candidate genes in qCTG-8, and LOC_Os11g32880 was identified as a candidate gene in qCTG-11. Conclusions This study demonstrated a general method that could be used to identify useful loci and genes in wild rice and aid in the future cloning of candidate genes of qCTG-8 and qCTG-11. The CSSLs with strong CT were supported for breeding cold-tolerant rice varieties.

Correlations Between Serum IL33 and Tumor Development: a Meta-analysis

Chen, Xiang-Jun,Huang, Ying-De,Li, Nian,Chen, Min,Liu, Fang,Pu, Dan,Zhou, Tao-You Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.8

Background: Interleukin-33 (IL-33) has recently been implicated in tumor development. Methods: Data was obtained from PubMed, EMBASE, Clinical trial, Cochrane Library, Web of Science, CNKI and Wanfang databases. After quality assessment and data extraction, a meta-analysis was performed using Review Manager 5.2 software. Results: There were eight documents included in this meta-analysis. The results showed IL33 levels to be higher in tumor patients than that in health people, but no correlations tumor stage, metastasis and survival time of tumor patients were evident. Conclusion: IL33 may be useful as an alarm factor in tumor detection and prognosis.

A National Study of Survival Trends and Conditional Survival in Nasopharyngeal Carcinoma: Analysis of the National Population-Based Surveillance Epidemiology and End Results Registry

Jia-Wei Lv,Xiao-Dan Huang,Yu-Pei Chen,Guan-Qun Zhou,Ling-Long Tang,Yan-Ping Mao,Wen-Fei Li,Ai-Hua Lin,Jun Ma,Ying Sun 대한암학회 2018 Cancer Research and Treatment Vol.50 No.2

Purpose Conditional survival (CS) provides important information on survival for a period of time after diagnosis. Currently, information on CS patterns of patients with nasopharyngeal carcinoma (NPC) is lacking. We aimed to analyze survival rate over time and estimate CS for NPC patients using a national population-based registry. Materials and Methods Patients diagnosed with NPC between 1973 and 2007 with at least 5-year follow-up were identified from the Surveillance Epidemiology End Results registry. Traditional survival rates and crude CS estimates were calculated using Kaplan-Meier analysis. Risk-adjusted survival curves were plotted from the proportional hazards model using the correct group prognosis method. Results For 7,713 patients analyzed, adjusted baseline 5-year overall survival improved significantly from 36.0% in patients diagnosed in 1973-1979, 41.7% in 1980-1989, 46.6% in 1990- 1999, to 54.7% in 2000-2007 (p < 0.01). CS analysis demonstrated that for every additional year survived, adjusted probability of surviving the next 5 years increased from 66.7% (localized), 54.0% (regional), and 35.3% (distant) at the time of diagnosis, to 83.7% (localized), 75.0% (regional), and 62.2% (distant) for patients who had survived 5 years. Adjusted 5-year CS differed among age, sex, tumor histology, ethnicity, and stage subgroups initially, but converged with time. Conclusion Treatment outcomes of NPC patients have greatly improved over the decades. Increases in CS become more prominent in patients with distant disease than in those with localized or regional disease as patients survive longer. CS provides more dynamic prognostic information for patients who have survived a period of time after diagnosis.

Flavonoid Glycosides and Potential Antivirus Activity of Isolated Compounds from the Leaves of Eucalyptus citriodora

Zhou, Zhong-Liu,Yin, Wen-Qing,Zou, Xiao-Peng,Huang, Dan-Ying,Zhou, Cui-Liu,Li, Lian-Mei,Chen, Ke-Cheng,Guo, Zi-Ying,Lin, San-Qing 한국응용생명화학회 2014 Applied Biological Chemistry (Appl Biol Chem) Vol.57 No.6

The extraction and solvent partition of the leaves of Eucalyptus citriodora, and repeated column chromatography for n-BuOH fraction yielded a new flavonoid glycoside, citrioside C (1), along with three known flavonoid glycosides (2-4). The latter were identified with kaempferol-3-O-${\beta}$-$\small{D}$-glucopyranosyl (12)-${\alpha}$-$\small{L}$-rhamnoside (2), kaempferol-3-O-${\alpha}$-$\small{L}$-rhamnoside (3), and quercetin-3-O-${\alpha}$-$\small{L}$-rhamnoside (4). Their chemical structures were identified on the basis of spectroscopic data analyses including NMR, MS, UV, and IR. All constitutents were isolated for the first time from the leaves of Eucalyptus citriodora. The potential antivirus activity of all the isolated compounds was evaluated. Compound 4 showed potent antiviral activity against respiratory syncytial virus with 50% inhibition concentration ($IC_{50}$) value of $1.9{\mu}g/mL$ and selective index value of 9.8.

Flavonoid Glycosides and Potential Antivirus Activity of Isolated Compounds from the Leaves of Eucalyptus citriodora

Zhong-Liu Zhou,Wen-Qing Yin,Xiao-Peng Zou,Dan-Ying Huang,Cui-Liu Zhou,Lian-Mei Li,Ke-Cheng Chen,Zi-Ying Guo,San-Qing Lin 한국응용생명화학회 2014 Applied Biological Chemistry (Appl Biol Chem) Vol.57 No.6

The extraction and solvent partition of the leaves ofEucalyptus citriodora, and repeated column chromatography for n-BuOH fraction yielded a new flavonoid glycoside, citrioside C (1),along with three known flavonoid glycosides (2-4). The latter wereidentified with kaempferol-3-O-β-D-glucopyranosyl (12)-α-L-rhamnoside(2), kaempferol-3-O-α-L-rhamnoside (3), and quercetin-3-O-α-Lrhamnoside(4). Their chemical structures were identified on thebasis of spectroscopic data analyses including NMR, MS, UV, andIR. All constitutents were isolated for the first time from the leavesof Eucalyptus citriodora. The potential antivirus activity of all theisolated compounds was evaluated. Compound 4 showed potentantiviral activity against respiratory syncytial virus with 50%inhibition concentration (IC50) value of 1.9 μg/mL and selectiveindex value of 9.8.