Co-expression of a pair of interdependent regulators coding genes ovmZ and ovmW awakens the production of angucyclinones antibiotics in Streptomyces neyagawaensis.

BACKGROUND: Microbial genome sequencing and analysis revealed the presence of abundant silent secondary metabolites biosynthetic gene clusters (BGCs) in streptomycetes. Activating these BGCs has great significance for discovering new compounds and novel biosynthetic pathways. RESULTS: In this study, we found that ovmZ and ovmW homologs, a pair of interdependent transcriptional regulators coding genes, are widespread in actinobacteria and closely associated with the biosynthesis of secondary metabolites. Through co-overexpression of native ovmZ and ovmW in Streptomyces neyagawaensis NRRL B-3092, a silent type II polyketide synthase (PKS) gene cluster was activated to produce gephyromycin A, tetrangomycin and fridamycin E with the yields of 22.3 ± 8.0 mg/L, 4.8 ± 0.5 mg/L and 20.3 ± 4.1 mg/L respectively in the recombinant strain of S.ne/pZnWn. However, expression of either ovmZ or ovmW failed to activate this gene cluster. Interestingly, overexpression of the heterologous ovmZ and ovmW pair from oviedomycin BGC of S. ansochromogenes 7100 also led to awakening of this silent angucyclinone BGC in S. neyagawaensis. CONCLUSION: A silent angucyclinone BGC was activated by overexpressing both ovmZ and ovmW in S. neyagawaensis. Due to the wide distribution of ovmZ and ovmW in the BGCs of actinobacteria, co-overexpression of ovmZ and ovmW could be a strategy for activating silent BGCs, thus stimulating the biosynthesis of secondary metabolites.

Identification of a Putative CodY Regulon in the Gram-Negative Phylum Synergistetes.

CodY is a dominant regulator in low G + C, Gram-positive Firmicutes that governs the regulation of various metabolic pathways and cellular processes. By using various bioinformatics analyses and DNA affinity precipitation assay (DAPA), this study confirmed the presence of CodY orthologues and corresponding regulons in Gram-negative Synergistetes. A novel palindromic sequence consisting of AT-rich arms separated by a spacer region of variable length and sequence was identified in the promoters of the putative codY-containing operons in Synergistetes. The consensus sequence from genera Synergistes and Cloacibacillus (5'-AATTTTCTTAAAATTTCSCTTGATATTTACAATTTT) contained three AT-rich regions, resulting in two palindromic sequences; one of which is identical to Firmicutes CodY box (5'-AATTTTCWGAAAATT). The function of the consensus sequence was tested by using a recombinant CodY protein (His-CodYDSM) of Cloacibacillus evryensis DSM19522 in DAPA. Mutations in the central AT-rich sequence reduced significantly the binding of His-CodYDSM, whereas mutations in the 5' or 3' end AT-rich sequence slightly reduced the binding, indicating that CodYDSM could recognize both palindromic sequences. The proposed binding sequences were found in the promoters of multiple genes involved in amino acids biosynthesis, metabolism, regulation, and stress responses in Synergistetes. Thus, a CodY-like protein from Synergistetes may function similarly to Firmicutes CodY.

Flower-Like Interlayer-Expanded MoS2- x Nanosheets Confined in Hollow Carbon Spheres with High-Efficiency Electrocatalysis Sites for Advanced Sodium-Sulfur Battery.

The room-temperature sodium-sulfur (RT-Na/S) battery is one of the most promising technologies for low-cost energy storage. However, application of RT-Na/S batteries is currently impeded by severe shuttle effects and volume expansion that limits both energy density and cycling stability. Herein, first, the first-principal calculation is used to find that the introduction of sulfur vacancies in MoS2 can effectively enhance polysulfide adsorption and catalytic ability as well as both the ion and electron conductivities. Then, unique MoS2- x /C composite spheres are further designed and synthesized with flower-like few-layer and interlayer-enlarged MoS2- x nanosheets space-confined in hollow carbon nanospheres by a "ship-in-a-bottle" strategy. With this novel design, the mass loading of S in the MoS2- x /C composite can be reached to as high as 75 wt%. Owing to the synergetic effect of interlayer-expanded and few-layer MoS2- x nanosheets and hollow carbon spheres matrix with high electronic/Na+ conductivity, the RT-Na/S batteries deliver highly stable cycle durability (capacity retention of 85.2% after 100 cycles at 0.1 A g-1 ) and remarkable rate capability (415.7 mAh g-1 at 2 A g-1 ) along with high energy density. This design strategy of defect- and interlayer-engineering may find wide applications in synthesizing electrode materials for high-performance RT-Na/S batteries.

Recursive Paleohexaploidization Shaped the Durian Genome.

The durian (Durio zibethinus) genome has recently become available, and analysis of this genome reveals two paleopolyploidization events previously inferred as shared with cotton (Gossypium spp.). Here, we reanalyzed the durian genome in comparison with other well-characterized genomes. We found that durian and cotton were actually affected by different polyploidization events: hexaploidization in durian ∼19-21 million years ago (mya) and decaploidization in cotton ∼13-14 mya. Previous interpretations of shared polyploidization events may have resulted from the elevated evolutionary rates in cotton genes due to the decaploidization and insufficient consideration of the complexity of plant genomes. The decaploidization elevated evolutionary rates of cotton genes by ∼64% compared to durian and explained a previous ∼4-fold over dating of the event. In contrast, the hexaploidization in durian did not prominently elevate gene evolutionary rates, likely due to its long generation time. Moreover, divergent evolutionary rates probably explain 98.4% of reconstructed phylogenetic trees of homologous genes being incongruent with expected topology. The findings provide further insight into the roles played by polypoidization in the evolution of genomes and genes, and they suggest revisiting existing reconstructed phylogenetic trees.

An Overlooked Paleotetraploidization in Cucurbitaceae.

Cucurbitaceae plants are of considerable biological and economic importance, and genomes of cucumber, watermelon, and melon have been sequenced. However, a comparative genomics exploration of their genome structures and evolution has not been available. Here, we aimed at performing a hierarchical inference of genomic homology resulted from recursive paleopolyploidizations. Unexpectedly, we found that, shortly after a core-eudicot-common hexaploidy, a cucurbit-common tetraploidization (CCT) occurred, overlooked by previous reports. Moreover, we characterized gene loss (and retention) after these respective events, which were significantly unbalanced between inferred subgenomes, and between plants after their split. The inference of a dominant subgenome and a sensitive one suggested an allotetraploid nature of the CCT. Besides, we found divergent evolutionary rates among cucurbits, and after doing rate correction, we dated the CCT to be 90-102 Ma, likely common to all Cucurbitaceae plants, showing its important role in the establishment of the plant family.

Enhancing Conversion Kinetics through Electron Density Dual-Regulation of Catalysts and Sulfur toward Room-/Subzero-Temperature Na-S Batteries.

Room-temperature sodium-sulfur (RT Na/S) batteries have received increasing attention for the next generation of large-scale energy storage, yet they are hindered by the severe dissolution of polysulfides, sluggish redox kinetic, and incomplete conversion of sodium polysulfides (NaPSs). Herein, the study proposes a dual-modulating strategy of the electronic structure of electrocatalyst and sulfur to accelerate the conversion of NaPSs. The selenium-modulated ZnS nanocrystals with electron rearrangement in hierarchical structured spherical carbon (Se-ZnS/HSC) facilitate Na+ transport and catalyze the conversion between short-chain sulfur and Na2S. And the in situ introduced Se within S can enhance conductivity and form an S─Se bond, suppressing the "polysulfides shuttle". Accordingly, the S@Se-ZnS/HSC cathode exhibits a specific capacity of as high as 1302.5 mAh g-1 at 0.1 A g-1 and ultrahigh-rate capability (676.9 mAh g-1 at 5.0 A g-1). Even at -10 °C, this cathode still delivers a high reversible capacity of 401.2 mAh g-1 at 0.05 A g-1 and 94% of the original capacitance after 50 cycles. This work provides a novel design idea for high-performance Na/S batteries.

Improved 93-11 Genome and Time-Course Transcriptome Expand Resources for Rice Genomics.

In 2002, the first crop genome was published using the rice cultivar 93-11, which is the progenitor of the first super-hybrid rice. The genome sequence has served as a reference genome for the indica cultivars, but the assembly has not been updated. In this study, we update the 93-11 genome assembly to a gap-less sequence using ultra-depth single molecule real-time (SMRT) reads, Hi-C sequencing, reference-guided, and gap-closing approach. The differences in the genome collinearity and gene content between the 93-11 and the Nipponbare reference genomes confirmed to map the indica cultivar sequencing data to the 93-11 genome, instead of the reference. Furthermore, time-course transcriptome data showed that the expression pattern was consistently correlated with the stages of seed development. Alternative splicing of starch synthesis-related genes and genomic variations of waxy make it a novel resource for targeted breeding. Collectively, the updated high quality 93-11 genome assembly can improve the understanding of the genome structures and functions of Oryza groups in molecular breeding programs.

Boosting lithium ion storage of lithium nickel manganese oxide via conformally interfacial nanocoating.

In this work, a conformally interfacial nanocoating strategy is introduced to enhance the lithium ion storage performance of LiNi0.5Mn1.5O4 (LNMO). Stable cycling of LNMO is achieved through La2O3 coating at both room and elevated temperatures. A series of La2O3-coated LNMO composites with various coating contents ranging from 0 to 3 wt% is prepared, and their electrochemical behaviors are systematically investigated. Among them, the 2 wt% La2O3-coated LNMO cathode presents the best comprehensive lithium ion storage performance; for instance, it retains more than 75% capacity retention after 500 cycles at room temperature and 93% capacity retention after 50 cycles at an elevated temperature of 55 °C with 1C rate. Moreover, the modified samples show more stable plateau potential than the pristine one during the cycling process. It is believed that the introduction of the La2O3 nanocoating layer can effectively suppress side reactions between electrode and electrolyte, thus maintaining stable structure of electrode material and reducing polarization during cycling. Our work provides an effective approach to improve the electrochemical stability of LNMO high-potential cathode for future large-scale applications of enhanced lithium ion batteries with high energy density and long cycle life.

A Reference Genome of Bursaphelenchus mucronatus Provides New Resources for Revealing Its Displacement by Pinewood Nematode.

The Bursaphelenchus mucronatus, which was highly similar with Bursaphelenchus xylophilus in terms of morphological characteristics and biological properties-but had weaker pathogenicity to forests-was a native species often displaced by B. xylophilus when occupying the same niche. Since the draft genome of the invasive B. xylophilus has been published, the absence of a reference genome of B. mucronatus still prevents us from understanding the molecular evidences behind competitive displacement. In this study, we employed Single Molecule, Real-Time (SMRT) sequencing and a Hi-C scaffolding approach to yield a near chromosome-level assembly of B. mucronatus, including six pseudo-chromosomes. The assembly size is 73 Mb, with scaffold N50 of 11.50 Mb and contig N50 of 1.48 Mb. Comparative genomics results showed high similarity between B. xylophilus and B. mucronatus. However, the losing of orphan genes and species-specific orthologous genes in B. mucronatus may indicate weaker adaptability to the environment. The gene family contractions of GPCRs (G Protein-Coupled Receptors) and cellulases in B. mucronatus may jointly contribute to its displacement by B. xylophilus. Overall, we introduced a valuable genomic resource for molecular and evolutionary studies of B. mucronatus, especially for studying the competitive displacement by the pinewood nematode, which could help us control the pathogenicity of pine wilt diseases.

Rational Construction of a Binder-Free and Universal Electrode for Stable and Fast Alkali-Ion Storage.

Na-ion batteries (SIBs) and K-ion batteries (PIBs) are considered as promising alternatives to Li-ion batteries (LIBs) for large-scale electrical-energy-storage applications. Thus, developing an advanced anodic material with appropriate structure for both SIBs and PIBs is urgently desirable but remains an eager challenge because of the relatively large ionic radius of Na+ or K+. Herein, we rationally design a sulfur-mediated three-dimensional graphene aerogel (SMGA) with plant cell wall structure as a binder-free anodic material for SIBs and PIBs as well as LIBs, exhibiting high capacity and excellent rate capability along with long cycling stability. For instance, at 0.1 A g-1, the SMGA anodes can deliver a high capacity of 320 mAh g-1 in PIBs after 500 cycles and 304 mAh g-1 in SIBs and 690 mAh g-1 in LIBs after 200 cycles. Furthermore, a detailed electrochemical kinetic calculation manifests that the Li/Na/K-ion storage capability is mainly ascribed to the introduction of sulfur in graphene aerogel (GA) to enlarge the interlayer distance, the three-dimensional interconnected network with porous structure providing sufficient space to accommodate volumetric expansion, and a short transport pathway for electrons/alkali-ions. Our results demonstrate the advanced performance of alkali-ion batteries, thus making it possible to develop a universal electrode for applications of cost-effective next-generation rechargeable batteries.