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The cultivation of Panax notoginseng is often seriously hindered by root rot disease caused by the accumulation of soil-borne pathogens. Here, the inhibitory activity of Brassica juncea volatiles on P. notoginseng root rot pathogens was assessed and compounds in volatiles were identified. Furthermore, the antimicrobial activity and mechanism of allyl isothiocyanate (AITC) were deciphered by integrated transcriptome and metabolome analyses. The volatiles of B. juncea showed dose-dependent antimicrobial activity against root rot pathogens. AITC, identified as the main volatile compound, not only significantly inhibited pathogen growth in vitro but also suppressed root rot disease in the field. Integrated transcriptomic and metabolomics analysis revealed that AITC inhibited Fusarium solani by interfering with energy production and induced the accumulation of ROS by decreasing the content of glutathione (GSH). In summary, B. juncea releases AITC to inhibit soil-borne pathogens and could be used as a rotation crop or soil fumigant to alleviate root rot disease.

Microgels are plankton-derived transparent exopolymer particles (TEP) and have a significant impact on global marine carbon cycle. We investigated the influence of biogeochemical variables on the pattern of TEP abundance and its associated carbon (TEPC) distribution through a vertical transect of the northern South China Sea (nSCS) during summer, 2014. The average TEP concentration was 58.32±30.56 μg Xeq./L. Vertically, it was higher in the subsurface water column and lower at 200-m water depths. As chlorophyll a (chl a), TEP, and TEPC were highly concentrated at the bottom of the study transect, mainly on the continental shelf bottom and slope regions. Among biotic factors, cyanobacteria, especially Trichodesmium thiebautii showed significant positive correspondences with TEP through studied water columns in nSCS. In addition, TEP showed a positive correlation with chl-a distribution and clustered closely with diatom as well. It indicates a combined contribution of them on TEP sourcing accordingly. Nutrient concentrations were also high due to estuarine diluted water from Zhujiang (Pearl) River in the season that may intrigue those scenarios. Significant positive correlation (P < 0.05) among biotic and abiotic parameters also supported the statement. Furthermore, mentionable contribution of TEP-derived TEPC was found after comparing the particulate organic carbon data, which may signify the importance of TEP in local carbon cycle in the nSCS.

Living coccolithophores (LCs) are regarded as a group of calcifiers and play important roles in global carbon cycle. This study used microscopic observations of LCs in the western Pacific Ocean to investigate their community structure and biodiversity, especially to test whether local physical traits (mesoscale eddies) could explain their biogeographic distributions during autumn of 2017. The coccolithophore calcite inventory based on carbon-volume transformation was estimated in this study. A total of 28 taxa of coccospheres and 19 types of coccoliths were identified from 161 samples. Gephyrocapsa oceanica was the most predominant species in all the coccolithophore community, followed by Florisphaera profunda, Emiliania huxleyi, Umbilicosphaera sibogae, Gladiolithus flabellatus and Umbellosphaera tenuis. The abundance of coccospheres and coccoliths ranged from 0 to 26.8×103 cells/L and from 0 to 138.5×103 coccoliths/L, averaged at 4.2×103 cells/L and 10.9×103 coccoliths/L, respectively. This study indicated that coccolithophore community in the survey area can be clustered into four groups. Three ecological niches of coccolithophores were characterized by their vertical profiles and multivariate statistical analysis. Coccolithophore abundance and species composition were remarkably different among warm-eddy region, G. oceanica dominated warm-eddy region, while F. profunda dominated warm-eddy and none-eddy region. The average values of estimated particulate inorganic carbon, particulate organic carbon were 0.197 μg/L and 0.140 μg/L, respectively. The current field study widened the dataset of coccolithophores in western Pacific Ocean.

The root of Panax notoginseng (Burk.), in which saponins are the major active components, is a famous traditional Chinese medicine used to stop bleeding and to decrease inflammation and heart disease. Inflorescence removal increases the yield and quality of P. notoginseng, but the underlying molecular mechanisms are unknown. Here, the differences between inflorescence-removal treatment and control groups of P. notoginseng were compared using transcriptomics and metabolomics analyses. Illumina sequencing of cDNA libraries prepared from the rhizomes, leaves and roots of the two groups independently identified 6,464, 4,584, and 7,220 differentially expressed genes (DEG), respectively. In total, 345 differentially expressed transcription factors (TFs), including MYB and WRKY family members, were induced by the inflorescence-removal treatment. Additionally, 215 DEGs involved in saponin terpenoid backbone biosynthetic pathways were identified. Most genes involved in the mevalonic acid (MVA) and methylerythritol phosphate (MEP) pathways were activated by inflorescence removal. The co-expression analysis showed that the low expression levels of flavonoid biosynthesis-related genes (e.g., C4H and F3H) decreased the biosynthesis and accumulation of some flavonoids after inflorescence removal. The results not only provide new insights into the fundamental mechanisms underlying the poorly studied inflorescence-removal process in P. notoginseng and other rhizome crops, but they also represent an important resource for future research on gene functions during inflorescence-removal treatments and the reproductive stage.

Coccolithophores are cosmopolitan, major calcifying protists that have significant roles in marine carbon cycling. Although the influence of temperature and irradiance fluctuation on coccolithophor...

Adjusting planting density is a common agricultural practice used to achieve maximum yields. However, whether the quality of medicinal herbs can be improved by implementing appropriate planting densities is still uncertain. The medicinal crop Panax notoginseng was used to analyze the effects of planting density on growth and ginsenoside accumulation, and the possible mechanisms of these effects were revealed through metabonomics. The results showed that P. notoginseng achieved high ginsenoside accumulation at high planting densities (8 × 8 and 10 × 10 cm), while simultaneously achieved high biomass and ginsenoside accumulation at moderate planting density of 15 × 15 cm. At the moderate planting density, the primary metabolism (starch and sucrose metabolism) and secondary metabolism (the biosynthesis of phytohormone IAA and ginsenoside) of the plants were significantly enhanced. However, the strong intraspecific competition at the high planting densities resulted in stress as well as the accumulation of phytohormones (SA and JA), antioxidants (gentiobiose, oxalic acid, dehydroascorbic acid) and other stress resistance-related metabolites. Interestingly, the dry biomass and ginsenoside content were significantly lower at low densities (20 × 20 and 30 × 30 cm) with low intraspecific competition, which disturbed normal carbohydrate metabolism by upregulating galactose metabolism. In summary, an appropriate planting density was benefit for the growth and accumulation of ginsenosides in P. notoginseng by balancing primary metabolism and secondary metabolism.

Phytoplankton are known as important harbingers of climate change in aquatic ecosystems. Here, the influence of the oceanographic settings on the phytoplankton community structure in the western South China Sea (SCS) was investigated during two seasons, i.e., the winter (December 2006) and summer (August–September, 2007). The phytoplankton community was mainly composed of diatoms (192 taxa), dinoflagellates (109 taxa), and cyanobacteria (4 taxa). The chain-forming diatoms and cyanobacteria Trichodesmium were the dominants throughout the study period. The phytoplankton community structure displayed distinct variation between two seasons, shifting from a diatom-dominated regime in winter to a cyanobacteria-dominated system in summer. The increased abundance of overall phytoplankton and cyanobacteria in the water column during the summer signifies the impact of nutrient advection due to upwelling and enriched eddy activity. That the symbiotic cyanobacteria–diatom (Rhizosolenia–Richelia) association was abundant during the winter signifies the influence of cool temperature. On the contrary, Trichodesmium dominance during the summer implies its tolerance to increased temperature. Overall, the two seasonal variations within the local phytoplankton community in the western SCS could simulate their community shift over the forthcoming climatic conditions.

In the context of global warming and climate anomaly events, as a response, shifts in phytoplankton phenology were observed in the Strait of Malacca (SM) and Sunda Shelf (SS). Such interactions between phytoplankton structure and physico-chemical factors were less known in narrow straits. Therefore, the spatial distribution pattern and diversity of surface phytoplankton assemblage, local hydrology and nutrient regimes were investigated over the Strait of Malacca and Sunda Shelf (South China Sea, SCS) during 2017 and 2018 pre-monsoon season (spring). Diatoms, dinoflagellates and cyanobacteria were representatives of microphytoplankton in the survey area. Total phytoplankton abundance peaked near Singapore Strait (SGS) and diminished towards SS. From the lower ratio of diatoms to dinoflagellates (

One strain of unicellular flagellated yellow-green algae was successfully isolated from the coastal area near Tianjin in the Bohai Sea in May 2015. The strain ranged from round to elongated in shape. Most of the cells possessed active motility, and some cells formed non-motile aggregation. Based on evidences from morphology, ultrastructure and molecular analysis, we identified the strain as Pavlova pinguis which belonged to Pavlovophyceae, Haptophyta. For Pavlovophyceae, only Pavlova viridis (Diacronema viridis) was reported in China seas prior to this study and it played an important role in aquaculture. This is the first record of Pavlova pinguis in Chinese waters.

We studied the biodiversity of autotrophic calcareous coccolithophore assemblages at 30 locations in the Eastern Equatorial Indian Ocean (EEIO) (80°–94°E, 6°N–5°S) and evaluated the importance of regional hydrology. We documented 26 species based on the identification of coccospheres and coccoliths, respectively. The coccolithophore community was dominated by Gephyrocapsa oceanica, Emiliania huxleyi, Florisphaera profunda, Umbilicosphaera sibogae, and Helicosphaera carteri. The abundance of coccoliths and coccospheres ranged from 0.2 × 103 to 160 × 103 coccoliths l−1 and 0.2 × 103 to 68 × 103 cells l−1, averaged 23 × 103 coccoliths l−1 and 9.4 × 103 cells l−1, respectively. Biogenic PIC, POC, and rain ratio mean values were 0.50 μgC l−1, 1.047 μgC l−1, and 0.10 respectively. High abundances of both coccoliths and coccospheres in the surface ocean layer occurred on the north of the equator. Vertically, the great majority of coccoliths and coccospheres were concentrated in water taken from depths of

The ecological province based on phytoplankton species composition is important to understanding the interplay between environmental parameters and phytoplankton species composition. The aim of this study was to establish phytoplankton species composition ecological pattern thus elucidate the relationship between environmental factors and the phytoplankton species composition in the ecological provinces. Phytoplankton samples were collected from 31 stations in Yellow Sea (121.00°–125.00°E, 32.00°–39.22°N) in November 2014. The samples were enumerated and identified with the Utermohl method under an optical inverted microscope-AE2000 with magnifications of 200 × or 400 ×. In the present study, a total of 141 taxa belonging to 60 genera of 4 phyla of phytoplankton were identified, among them 101 species of 45 genera were Bacillariophyta, 36 species of 11 genera were Dinophyta, 3 species of 3 genera were Chrysophyta and 1 species of 1 genera was Chlorophyta. The study area was divided into 4 ecological provinces according to an unsupervised cluster algorithm applied to the phytoplankton biomass. A T-S (Temperature-Salinity) scatter diagram depicted with data of water temperature and salinity defined by environmental provinces matched well with the ecological provinces. The results of Canonical Correspondence Analysis (CCA) indicated that the phytoplankton species composition was mainly correlated with temperature, salinity and silicate concentration in the studied area. A method of establishing ecological provinces is useful to further understanding the environmental effects on the marine phytoplankton species composition and the consequent marine biogeochemistry.

To better understand the physicochemical conditions in affecting regional distribution of phytoplankton community, one research cruise was carried out in the Bohai Sea and Yellow Sea during 3rd and 23th May, 2010. The phytoplankton community, including Bacillariophyta (105 taxa), Pyrrophyta (54 taxa), Chrysophyta (1 taxon) and Chlorophyta (2 taxa), had been identified and clearly described from six ecological provinces. And, the six ecological provinces were partitioned based on the top twenty dominant species related with notable physicochemical parameters. In general, the regional distributions of phytoplankton ecological provinces were predominantly influenced by the physicochemical properties induced by the variable water masses and circulations. The predominant diatoms in most of water samples showed well adaptability in turbulent and eutrophic conditions. However, several species of dinoflagellates e.g., Protoperidinium conicum, Protoperidinium triestinum, Protoperidinium sp. and Gymnodinium lohmanni preferred warmer, saltier and nutrient-poor environment. Moreover, the dinoflagellates with high frequency in the Yellow Sea might be transported from the Yellow Sea Warm Current. The horizontal distribution of phytoplankton was depicted by diatoms and controlled by phosphate concentration, while the vertical distribution was mainly supported by light and nutrients availability in the subsurface and bottom layers, respectively.

Coccolithophores, a calcifying phytoplankton group, are a major component of the oligotrophic ocean. The tropical eastern Indian Ocean (EIO) possesses a complex regional hydrological system that also impacts the global climate. Coccolithophores are a major indicator of these oceanographic and air-sea processes. Understanding coccolithophore population dynamics associated with extreme climate events is significant for predicting future ocean biogeochemical studies, and contributing to the regional and global climatic model. Therefore, we used a consecutive 7 years (2011–2018) dataset of coccolithophore assemblages and their organic carbon biomass from the tropical EIO during the spring premonsoon period to interpret the aforementioned climatic changes. Among the 33 identified species, the ecologically important species Gephyrocapsa oceanica, Emiliania huxleyi, Algirosphaera robusta, Florisphaera profunda, Umbilicosphaera sibogae, and Umbellosphaera irregularis dominated the coccolithophore assemblages. In the EIO, regional environmental factors including high-level eddy kinetic energy, equatorial jets and upwelling lead to the patchy distribution of surface coccolithophores, but no signs of interannual spatial variations were observed. Furthermore, this study revealed that variability in euphotic coccolithophore abundance and diversity indices were correlated with global climate anomalies. The variations in the interannual coccolithophore abundance and estimated coccolithophore organic carbon could be a result of global warming and other climatic variabilities. Particularly, an apparent increase in coccolithophore abundance was observed during El Nino and positive Indian Ocean Dipole (IOD) events due to their favorable thermal regimes. In contrast, the abundance of coccolithophores reduced during La Nina and negative IOD events. Overall, our pilot findings would encourage further studies on coccolithophore responses to regional EIO environments and global climatic anomalies.

We studied the biodiversity of autotrophic calcareous coccolithophore assemblages at 30 locations in the eastern equatorial Indian Ocean (EEIO) (80°–94° E, 6° N–5° S) and evaluated the importance of regional hydrology. We found 25 taxa of coccospheres and 17 taxa of coccoliths. The coccolithophore community was dominated by Gephyrocapsa oceanica, Emiliania huxleyi, Florisphaera profunda, Umbilicosphaera sibogae, and Helicosphaera carteri. The abundance of coccoliths and coccospheres ranged from 0.192×103 to 161.709×103 coccoliths l−1 and 0.192×103 to 68.365×103 cells l−1, averaged at 22.658×103 coccoliths l−1 and 9.386×103 cells l−1, respectively. Biogenic PIC, POC, and rain ratio mean values were 0.498 μgC l−1, 1.047 μgC l−1, and 0.990 respectively. High abundances of both coccoliths and coccospheres in the surface ocean layer occurred north of the equator. Vertically, the great majority of coccoliths and coccospheres were concentrated in water less than 75 m deep. The ratios between the number of coccospheres and free coccoliths across four transects indicated a pattern that varied among different oceanographic settings. The H’ and J values of coccospheres were similar compared with those of coccoliths. Abundant coccolithophores along the equator) mainly occurred west of 90° E, which was in accordance with the presence of Wyrtki jets (WJs). F. profunda was not found in surface water, indicating a stratified and stable water system. U. irregularis dominated in the equatorial zone, suggesting oligotrophic water conditions. Coccosphere distribution was explained by environmental variables, indicated by multi-dimensional scaling (MDS) ordination in response variables and principal components analysis (PCA) ordination in explanatory variables. Coccolithophore distribution was related to temperature, salinity, density and chlorophyll a.

The diazotrophic communities play an important role in sustaining primary productivity through adding new nitrogen to oligotrophic marine ecosystems. Yet, their composition in the oligotrophic Indian Ocean is poorly understood. Here, we report the first observation of phylogenetic diversity and distribution of diazotrophs in the Eastern Indian Ocean (EIO) surface water (to 200 m) during the pre-southwest monsoon period. Through high throughput sequencing of nifH genes, we identified diverse groups of diazotrophs in the EIO including both non-cyanobacterial and cyanobacterial phylotypes. Proteobacteria (mainly Alpha-, Beta-, and Gamma-proteobacteria) were the most diverse and abundant groups within all the diazotrophs, which accounted for more than 86.9% of the total sequences. Cyanobacteria were also retrieved, and they were dominated by the filamentous non-heterocystous cyanobacteria Trichodesmium spp. Other cyanobacteria such as unicellular diazotrophic cyanobacteria were detected sporadically. Interestingly, our qPCR analysis demonstrated that the depth-integrated gene abundances of the diazotrophic communities exhibited spatial heterogeneity with Trichodesmium spp. appeared to be more abundant in the Bay of Bengal (p

Diatoms are a successful group of marine phytoplankton that often thrives under adverse environmental stress conditions. Members of the Skeletonema genus are ecologically important which may subsist during silicate stress and form a dense bloom following higher silicate concentration. However, our understanding of diatoms&rsquo, underlying molecular mechanism involved in these intracellular silicate stress-responses are limited. Here an iTRAQ-based proteomic method was coupled with multiple physiological techniques to explore distinct cellular responses associated with oxidative stress in the diatom Skeletonema dohrnii to the silicate limitation. In total, 1768 proteins were detected, 594 proteins were identified as differentially expressed (greater than a two-fold change, p &lt, 0.05). In Si-limited cells, downregulated proteins were mainly related to photosynthesis metabolism, light-harvesting complex, and oxidative phosphorylation, corresponding to inducing oxidative stress, and ROS accumulation. None of these responses were identified in Si-limited cells, in comparing with other literature, Si-stress cells showed that ATP-limited diatoms are unable to rely on photosynthesis, which will break down and reshuffle carbon metabolism to compensate for photosynthetic carbon fixation losses. Our findings have a good correlation with earlier reports and provides a new molecular level insight into the systematic intracellular responses employed by diatoms in response to silicate stress in the marine environment.