Absorption and Transport of Inorganic Carbon in Kelps with Emphasis on Saccharina japonica

Due to the low CO2 concentration in seawater, macroalgae including Saccharina japonica have developed mechanisms for using the abundant external pool of HCO3− as an exogenous inorganic carbon (Ci) source. Otherwise, the high photosynthetic efficiency of some macroalgae indicates that they might possess CO2 concentrating mechanisms (CCMs) to elevate CO2 concentration intracellularly around the active site of ribulose-1, 5-bisphosphate carboxylase/oxygenase (RuBisCo). As the photosynthetic modes of macroalgae are diverse (C3, C4 or a combination of C3 and C4 pathway), CCMs in different carbon fixation pathways should vary correspondingly. However, both in C3 and C4 pathways, carbonic anhydrase (CA) plays a key role by supplying either CO2 to RuBisCO or HCO3− to PEPC. Over the past decade, although CA activities have been detected in a number of macroalgae, genes of CA family, expression levels of CA genes under different CO2 concentrations, as well as subcellular location of each CA have been rarely reported. Based on analysis the reported high-throughput sequencing data of S. japonica, 12 CAs of S. japonica (SjCA) genes were obtained. Neighbor-Joining (NJ) phylogenetic tree of SjCAs constructed using Mega6.0 and the subcellular location prediction of each CA by WoLFPSORT are also conducted in this article

The geometric constraints on Filippov algebroids

Filippov n-algebroids are introduced by Grabowski and Marmo as a natural generalization of Lie algebroids. In this note, we characterize Filippov n-algebroid structures by considering certain multi-input connections, which we call Filippov connections, on the underlying vector bundle. Through this approach, we are able to express the n-ary bracket of any Filippov n-algebroid using a torsion-free type formula. Additionally, we transform the generalized Jacobi identity of the Filippov n-algebroid into the Bianchi-Filippov identity. Furthermore, in the case of rank n vector bundles, we provide a characterization of linear Nambu-Poisson structures using Filippov connections

A Class of Lie 2-Algebras in Higher-Order Courant Algebroids

Abstract In this paper, we study the relation of the algebraic properties of the higher-order Courant bracket and Dorfman bracket on the direct sum bundle for an m-dimensional smooth manifold M, and a Lie 2-algebra which is a "categorified" version of a Lie algebra. We prove that the higher-order Courant algebroids give rise to a semistrict Lie 2-algebra, and we prove that the higher-order Dorfman algebroids give rise to a hemistrict Lie 2-algebra. Consequently, there is an isomorphism from the higher-order Courant algebroids to the higher-order Dorfman algebroids as Lie 2-algebras homomorphism

On higher analogues of Courant algebroids

In this paper, we study the algebraic properties of the higher analogues of Courant algebroid structures on the direct sum bundle $TM\oplus\wedge^nT^*M$ for an $m$-dimensional manifold. As an application, we revisit Nambu-Poisson structures and multisymplectic structures. We prove that the graph of an $(n+1)$-vector field $\pi$ is closed under the higher-order Dorfman bracket iff $\pi$ is a Nambu-Poisson structure. Consequently, there is an induced Leibniz algebroid structure on $\wedge^nT^*M$. The graph of an $(n+1)$-form $\omega$ is closed under the higher-order Dorfman bracket iff $\omega$ is a premultisymplectic structure of order $n$, i.e. \dM\omega=0. Furthermore, there is a Lie algebroid structure on the admissible bundle $A\subset\wedge^{n}T^*M$. In particular, for a 2-plectic structure, it induces the Lie 2-algebra structure given in \cite{baez:classicalstring}.Comment: 13 page

Tissue-Autonomous Function of Drosophila Seipin in Preventing Ectopic Lipid Droplet Formation

Obesity is characterized by accumulation of excess body fat, while lipodystrophy is characterized by loss or absence of body fat. Despite their opposite phenotypes, these two conditions both cause ectopic lipid storage in non-adipose tissues, leading to lipotoxicity, which has health-threatening consequences. The exact mechanisms underlying ectopic lipid storage remain elusive. Here we report the analysis of a Drosophila model of the most severe form of human lipodystrophy, Berardinelli-Seip Congenital Lipodystrophy 2, which is caused by mutations in the BSCL2/Seipin gene. In addition to reduced lipid storage in the fat body, dSeipin mutant flies accumulate ectopic lipid droplets in the salivary gland, a non-adipose tissue. This phenotype was suppressed by expressing dSeipin specifically within the salivary gland. dSeipin mutants display synergistic genetic interactions with lipogenic genes in the formation of ectopic lipid droplets. Our data suggest that dSeipin may participate in phosphatidic acid metabolism and subsequently down-regulate lipogenesis to prevent ectopic lipid droplet formation. In summary, we have demonstrated a tissue-autonomous role of dSeipin in ectopic lipid storage in lipodystrophy

The R2R3-MYB Transcription Factor Gene Family in Maize

MYB proteins comprise a large family of plant transcription factors, members of which perform a variety of functions in plant biological processes. To date, no genome-wide characterization of this gene family has been conducted in maize (Zea mays). In the present study, we performed a comprehensive computational analysis, to yield a complete overview of the R2R3-MYB gene family in maize, including the phylogeny, expression patterns, and also its structural and functional characteristics. The MYB gene structure in maize and Arabidopsis were highly conserved, indicating that they were originally compact in size. Subgroup-specific conserved motifs outside the MYB domain may reflect functional conservation. The genome distribution strongly supports the hypothesis that segmental and tandem duplication contribute to the expansion of maize MYB genes. We also performed an updated and comprehensive classification of the R2R3-MYB gene families in maize and other plant species. The result revealed that the functions were conserved between maize MYB genes and their putative orthologs, demonstrating the origin and evolutionary diversification of plant MYB genes. Species-specific groups/subgroups may evolve or be lost during evolution, resulting in functional divergence. Expression profile study indicated that maize R2R3-MYB genes exhibit a variety of expression patterns, suggesting diverse functions. Furthermore, computational prediction potential targets of maize microRNAs (miRNAs) revealed that miR159, miR319, and miR160 may be implicated in regulating maize R2R3-MYB genes, suggesting roles of these miRNAs in post-transcriptional regulation and transcription networks. Our comparative analysis of R2R3-MYB genes in maize confirm and extend the sequence and functional characteristics of this gene family, and will facilitate future functional analysis of the MYB gene family in maize

Complete sequence of chloroplast genome from Sargassum vachellianum (Sargassaceae, Phaeophyceae): Genome structure and comparative analysis

Sargassum vachellianum is an ecologically important brown alga. It is China-specific and mainly inhabits in rocky intertidal zones in southeast coastal waters of China. In this study, we sequenced its circular complete chloroplast genome (cpDNA) and compared it with cpDNAs from S. vachellianum, S. horneri and S. thunbergii. The complete S. vachellianum cpDNA was 124,582 bp in length and consisted of a pair of inverted repeats (IRs) of 5435 bp, a large single copy (LSC) region of 73,721 bp and a small single copy (SSC) region of 39,991 bp. Totally 160 genes were predicted, including 132 protein-coding genes, four ribosomal RNA genes and 24 tRNA genes, and the coding sequences contributed 77.48% of the whole genome. In addition, 25 SSR loci and 28 highly variable regions were identified from the S. vachellianum cpDNA, which might be used as candidates for developing DNA barcode markers of Sargassum species. The phylogenetic tree based on datasets of all the plastid-encoded proteins demonstrated that species of S. subgenus Bactrophycus were firstly combined and then clustered with S. vachellianum, which belongs to S. subgen. Sargassum. The results indicate that the chloroplast genomes are good resources for developing new DNA markers for taxonomy, and also as tools for evolutionary research of closely related species in future studies

Full-length mRNA sequencing in Saccharina japonica and identification of carbonic anhydrase genes

The carbonic anhydrases (CAs) are a group of enzymes that play an important role in the absorption and transportation of CO2 in Saccharina japonica. They are encoded by a superfamily of genes with seven subtypes that are unrelated in sequence but share conserved function in catalyzing the reversible conversion of CO2 and HCO3−. Here we have characterized the CA members in the transcriptome of S. japonica using Single-molecule real-time (SMRT) sequencing technology. Approximately 9830.4 megabases from 5,028,003 quality subreads were generated, and they were assembled into 326,512 full-length non-chimeric (FLNC) reads, with an average flnc read length of 2181 bp. After removing redundant sequences, 79,010 unique transcripts were obtained of which 38,039 transcripts were successfully annotated. From the full-length transcriptome, we have identified 7 full-length cDNA sequences for CA genes (4 α-CAs, 1 β-CAs and 2 γ-CAs) and assessed for their potential functions based on phylogenetic analysis. Characterizations of CAs will provide the ground for future studies to determine the involvement of CAs in inorganic carbon absorption and transportation in S. japonica. Keywords: Carbonic anhydrase, Mutigene family, Single-molecule real-time sequencing, Full-length mRNA sequencing, Saccharina japonic

Higher Omni-Lie Algebroids

We propose a definition of a "higher" version of the omni-Lie algebroid and study its isotropic and involutive subbundles. Our higher omni-Lie algebroid is to (multi)contact and related geometries what the higher generalized tangent bundle of Zambon and Bi/Sheng is to (multi)symplectic and related geometries