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Nostoc flagelliforme, which is distributed on arid and semi-arid steppes of northwestern parts of China, has attracted increasing interest for its stress tolerance. In order to gain more insight into the genetic background of N. flagelliforme, we sequenced its partial genomic DNA for similarity analyses against current public databases, followed by phylogenetic comparison of N. flagelliforme and the potentially related species deduced from the similarity analyses. Approximately 430 kb genomic sequence (~ 5% of genome as a rough estimate) was determined from 106 distinct genomic clones. Nucleotide BLAST showed that ~ 23.1% of the partial genomic sequence was similar to N. punctiforme genomic DNA and ~ 12.4% to its plasmid DNA. Similar protein search by online FASTA-protein program showed 46.2% of the similar proteins had their corresponding orthologs in N. punctiforme genome. Furthermore, phylogenetic comparison based on 16S rRNA sequences showed N. flagelliforme and N. punctiforme clustered closer among the deduced related species. These results indicated that N. punctiforme might also be potentially close neighbor species of N. flagelliforme, in addition to the formerly regarded close neighbor species N. commune and N. sphaeroids. In general, these data enriched our recognition of the evolutionary relationship between N. flagelliforme and other Nostoc species, especially N. punctiforme.
UV-B radiation is one of the major environmental stresses that triggers a variety of plant responses. However, limited information is available regarding plant biological reactions which help to circumvent the potentially harmful effects of UV-B radiation in lettuce (Lactuca sativa L.). In addition, leaf color is one of the most important economic traits of lettuce. The coloration of lettuce is mainly attributed to anthocyanins. Little is currently known about the correlation between anthocyanin biosynthesis and UV-B radiation in lettuce. Therefore, a comprehensive investigation of plant responses to UV-B radiation is critical for explaining the physiological and morphological alterations and revealing the key roles of UV-B in promoting anthocyanin biosynthesis in lettuce. In this study, RNA-seq was performed using the next-generation Illumina HiSeq™ 2000 sequencing platform and de novo assembly based on eight cDNA libraries of lettuce (Lactuca sativa L. cv. Shenxuan 5, a purple leaf cultivar) under UV-B-free and UV-B-stressed conditions. Over 382 million high-quality reads were assembled into 88,978 unigenes using a combined assembly strategy. Then a total of 69,397 (77.99%) unigenes were annotated based on at least one public database using homology searches. The transcriptome analysis identified a lot of genes differentially expressed in response to UV-B radiation. In particular, several anthocyanin biosynthetic genes were actively regulated by UV-B radiation. The expression patterns of unigenes encoding cinnamate-4-hydroxylase (C4H), 4-coumarate-CoA ligase (4CL), chalcone synthase (CHS), flavonol synthase (FLS), and dihydroflavonol reductase (DFR) differed between samples. This study represents the first investigation of the transcriptome of lettuce under UV-B radiation. The comparative bioinformatics analysis expands our understanding of plant responses to UV-B stress and its role in leaf coloration of lettuce. Our research also provides a bridge to extend studies to other economically important crops.
To understand the nutrient absorption and adaptability of plant species that initially colonize mounds and the influences of the plateau zokor on the diversity of the plant community after 4 years' period, a series of experiments was conducted in an alpine meadow on the Qinghai-Tibetan Plateau. The contents of C and N and the flow of N in pioneer species were measured and tracked using the ¹⁵N isotope tracer method, and the species diversity on 4-year-old mounds was investigated. The results showed that (1) plateau zokors could influence the plant species on the mounds by creating gaps in the grassland; (2) Elymus nutans and Elsholtzia feddei, with high rates and efficiencies of nutrient absorption and transportation, were more competitive on the newly formed mounds than other species; (3) Elymus nutans played a dominant role in the plant community of the mounds; and (4) plateau zokors did not change the plant diversity after 4 years' period. These findings indicated that species colonizing the mounds experienced a process of competition when gaps were created by the rodents, that species with greater capabilities for resource acquisition and utilization had stronger competitiveness and vice versa, and that after a few years, the plant diversity on the mounds was almost similar to that of the undisturbed grassland.
In karst areas, in order to ascertain the relationship between soil active organic carbon fractions and soil nutrient elements, topsoil samples (the sampling points were set at 80-m intervals) were collected for the analysis of soil physicochemical properties. In the sampling area, land use was divided into upland, paddy, and shrub land. The results showed that dissolved organic C (DOC) and microbial biomass C (MBC) contents in shrub land soil were higher than those values in upland and paddy soils (p<0.05). The total nitrogen (TN) content in paddy was lower than in upland and shrub land (p<0.05). The mean value of total phosphorus (TP) in upland and shrub land was approximately 1.5 times higher than that in paddy. Available nitrogen (AN) in shrub land soil was higher than in upland, whereas Olsen-P was lowest in shrub land in all soils (p<0.05). The C:P and N:P ratios in upland and paddy were lower than in shrub land (p<0.05). At plot scale, random forest analysis revealed that pH and soil organic carbon (SOC) were the most important variables determining DOC content in croplands (upland and paddy) and shrub land, respectively. The accumulation of SOC accelerates the growth of microbial biomass in upland. In shrub land, increases in SOC and total nitrogen were in favor of microbial growth. At the small-watershed scale, C:P and N:P ratios had a significant and positive effect on the content of DOC and MBC, respectively. The results implied that high C and N availability, especially in combination with low P availability, is helpful for increasing soil microbial biomass.
Two tapeworm specimens collected in northeast China in 2009 and 2011 were identified as Diphyllobothrium latum based on morphological criteria. Molecular methods were used to confirm their identity and analyze genetic variations compared with published data for this species. Species identity was confirmed by molecular characterization of the 18S rDNA partial sequence, complete sequences of internal transcribed spacers (ITSs) and 5.8S rDNA, and partial sequences of mitochondrial cytochrome c oxidase subunit 1 (cox1) and mitochondrial NADH dehydrogenase subunit 5 (nad5). PCR amplification and sequence analysis of 18S rDNA (1472 bp), ITS regions (1218 bp), cox1 (885 bp), and nad5 (1028 bp) revealed that these four sequences showed more than 99% identity to reference sequences for D. latum, confirming that this species is D. latum. To date, a total of 12 diphyllobothriosis cases have been documented in China. This study represents the first molecular characterization of D. latum in China, providing molecular evidence of human diphyllobothriosis in China.
Oral cancer remains a deadly disease worldwide. Lymph node metastasis and invasion is one of the causes of death from oral cancer. Elucidating the mechanism of oral cancer lymph node metastasis and identifying critical regulatory genes are important for the treatment of this disease. This study aimed to identify differentially expressed genes (gene signature) and pathways that contribute to oral cancer metastasis to lymph nodes. The GSE70604-associated study compared gene profiles in lymph nodes with metastasis of oral cancer to those of normal lymph nodes. The GSE2280-associated study compared gene profiles in primary tumor of oral cancer with lymph node metastasis to those in tumors without lymph node metastasis. There are 28 common differentially expressed genes (DEGs) showing consistent changes in both datasets in overlapping analysis. GO biological process and KEGG pathway analysis of these 28 DEGs identified the gene signature CCND1, JUN and SPP1, which are categorized as key regulatory genes involved in the focal adhesion pathway. Silencing expression of CCND1, JUN and SPP1 in the human oral cancer cell line OECM-1 confirmed that those genes play essential roles in oral cancer cell invasion. Analysis of clinical samples of oral cancer found a strong correlation of these genes with short survival, especially JUN expression associated with metastasis. Our study identified a unique gene signature – CCND1, JUN and SPP1 – which may be involved in oral cancer lymph node metastasis.
It has been observed that leaf morphology shift within species is linked to climate change, but there are few studies on the effects of altitude change on leaf morphology of species. We hypothesized that similar to climate change, a morphological shift within species would occur over time under different growing altitudes. In this study, we evaluated three dominant grass species: Elymus nutans Griseb., Kobresia capillifolia Clarke., Carex moorcroftii Boott., taking advantage of the altitudinal variations (3000-4000 a.s.l.) on the Qinghai-Tibetan Plateau. Our study showed that almost all leaf traits of these three species had significant differences (P <0.05) across an altitudinal gradient. Different species responded differently to altitude change. Leaf thickness (LT) of the three species increased with increase in altitude. Leaf area (LA) of E. nutans and C. moorcroftii decreased with increasing altitude, but that of K. capillifolia increased. There was no obvious linear effect on leaf dry matter content (LDMC) and specific leaf area (SLA) of these three species. LDMC of E. nutans and C. moorcroftii showed a trend of increase, while that of K. capillifolia decreased. SLA of E. nutans and K. capillifolia showed a trend of increase, but that of C. moorcroftii decreased with increase in altitude. In addition, soil pH (pH) and air temperature (AT) decreased with increase in altitude. However, other soil and climate factors increased as altitude increased. The finding of this work is that leaf morphology shift within species happens under altitude change to adapt to specific environment.
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