Cloud-cloud collision and star formation in G323.18+0.15

We studied the cloud-cloud collision candidate G323.18+0.15 based on signatures of induced filaments, clumps, and star formation. We used archival molecular spectrum line data from the SEDIGISM $^{13}$CO($J$\,=\,2--1) survey, from the Mopra southern Galactic plane CO survey, and infrared to radio data from the GLIMPSE, MIPS, Hi-GAL, and SGPS surveys. Our new result shows that the G323.18+0.15 complex is 3.55kpc away from us and consists of three cloud components, G323.18a, G323.18b, and G323.18c. G323.18b shows a perfect U-shape structure, which can be fully complemented by G323.18a, suggesting a collision between G323.18a and the combined G323.18bc filamentary structure. One dense compressed layer (filament) is formed at the bottom of G323.18b, where we detect a greatly increased velocity dispersion. The bridge with an intermediate velocity in a position-velocity diagram appears between G323.18a and G323.18b, which corresponds to the compressed layer. G323.18a plus G323.18b as a whole are probably not gravitationally bound. This indicates that high-mass star formation in the compressed layer may have been caused by an accidental event. The column density in the compressed layer of about $1.36 \times 10^{22}$cm$^{-2}$ and most of the dense clumps and high-mass stars are located there. The average surface density of classI and classII young stellar objects (YSOs) inside the G323.18+0.15 complex is much higher than the density in the surroundings. The timescale of the collision between G323.18a and G323.18b is $1.59$Myr. This is longer than the typical lifetime of classI YSOs and is comparable to the lifetime of classII YSOs

Gravitational collapse and accretion flows in the hub filament system G323.46-0.08

We studied the hub filament system G323.46-0.08 based on archival molecular line data from the SEDIGISM 13CO survey and infrared data from the GLIMPSE, MIPS, and Hi-GAL surveys. G323.46-0.08 consists of three filaments, F-north, F-west, and F-south, that converge toward the central high_mass clump AGAL 323.459-0.079. F-west and Part 1 of the F-south show clear large-scale velocity gradients 0.28 and 0.44 km s-1 pc-1, respectively. They seem to be channeling materials into AGAL 323.459-0.079. The minimum accretion rate was estimated to be 1216 M Myr-1. A characteristic V-shape appears around AGAL 323.459-0.079 in the PV diagram, which traces the accelerated gas motions under gravitational collapse. This has also been supported by model fitting results. All three filaments are supercritical and they have fragmented into many dense clumps. The seesaw patterns near most dense clumps in the PV diagram suggests that mass accretion also occurs along the filament toward the clumps. Our results show that filamentary accretion flows appear to be an important mechanism for supplying the materials necessary to form the central high-mass clump AGAL 323.459-0.079 and to propel the star forming activity taking place therein

TARE1, a Mutated Copia-Like LTR Retrotransposon Followed by Recent Massive Amplification in Tomato.

Long terminal repeat retrotransposons (LTR-RTs) are the major DNA components in flowering plants. Most LTR-RTs contain dinucleotides ‘TG’ and ‘CA’ at the ends of the two LTRs. Here we report the structure, evolution, and propensity of a tomato atypical retrotransposon element (TARE1) with both LTRs starting as ‘TA’. This family is also characterized by high copy numbers (354 copies), short LTR size (194 bp), extremely low ratio of solo LTRs to intact elements (0.05:1), recent insertion (most within 0.75~1.75 million years, Mys), and enrichment in pericentromeric region. The majority (83%) of the TARE1 elements are shared between S. lycopersicum and its wild relative S. pimpinellifolium, but none of them are found in potato. In the present study, we used shared LTR-RTs as molecular markers and estimated the divergence time between S. lycopersicum and S. pimpinellifolium to be TARE1 elements, together with two closely related families, TARE2and TGRE1, have formed a sub-lineage belonging to a Copia-like Ale lineage. Although TARE1and TARE2 shared similar structural characteristics, the timing, scale, and activity of their amplification were found to be substantially different. We further propose a model wherein a single mutation from ‘G’ to ‘A’ in 3′ LTR followed by amplification is responsible for the origin ofTARE1, thus providing evidence that the proliferation of a spontaneous mutation can be mediated by the amplification of LTR-RTs at the level of RNA

A genome-wide association study reveals a rich genetic architecture of flour color-related traits in bread wheat

Flour color-related traits, including brightness (L*), redness (a*), yellowness (b*) and yellow pigment content (YPC), are very important for end-use quality of wheat. Uncovering the genetic architecture of these traits is necessary for improving wheat quality by marker-assisted selection (MAS). In the present study, a genome-wide association study (GWAS) was performed on a collection of 166 bread wheat cultivars to better understand the genetic architecture of flour color-related traits using the wheat 90 and 660 K SNP arrays, and 10 allele-specific markers for known genes influencing these traits. Fifteen, 28, 25, and 32 marker–trait associations (MTAs) for L*, a*, b*, and YPC, respectively, were detected, explaining 6.5–20.9% phenotypic variation. Seventy-eight loci were consistent across all four environments. Compared with previous studies, Psy-A1, Psy-B1, Pinb-D1, and the 1B•1R translocation controlling flour color-related traits were confirmed, and four loci were novel. Two and 11 loci explained much more phenotypic variation of a* and YPC than phytoene synthase 1 gene (Psy1), respectively. Sixteen candidate genes were predicted based on biochemical information and bioinformatics analyses, mainly related to carotenoid biosynthesis and degradation, terpenoid backbone biosynthesis and glycolysis/gluconeogenesis. The results largely enrich our knowledge of the genetic basis of flour color-related traits in bread wheat and provide valuable markers for wheat quality improvement. The study also indicated that GWAS was a powerful strategy for dissecting flour color-related traits and identifying candidate genes based on diverse genotypes and high-throughput SNP arrays

Cyr61 Mediates Angiotensin II-Induced Podocyte Apoptosis via the Upregulation of TXNIP

Purpose. It is well documented that angiotensin II (Ang II) elevation promotes apoptosis of podocytes in vivo and vitro, but the potential mechanism is still oscular. The current study is aimed at probing into the assignment of cysteine-rich protein 61 (Cyr61) in Ang II-induced podocyte apoptosis. Methods. Podocytes were treated with Ang II (10-6 mol/L) for 48 hours to establish an injury model in vitro. Western blot assays were detected the expression of Cyr61, Cyt-c, Bax, and Bcl-2. Gene microarray was used to analyze the expression of mRNAs after treatment with Ang II. CRISPR/Cas9 technology was used to knock down Cyr61 and overexpress TXNIP gene, respectively. Results. The expression of Cyr61, TXNIP, Cyt-c, and Bax in podocytes treated with Ang II were upregulated, but the expression and apoptotic rates of Bcl-2 in podocytes were inhibited. The level of the above factors was not significantly different after the knockdown of Cyr61 with Ang II in podocytes. In Ang II group, when knocked down Cyr61, the expressed level of TXNIP, Cyt-c, and Bax was diminished after Ang II treatment; interestingly Bcl-2 expression and podocyte apoptotic rate were reduced. Under the stimulation of Ang II, the expression of Cyt-c and Bax were growing, whereas Bcl-2 was reduced, and the apoptotic rates were higher in the TXNIP overexpression group. Cyt-c and Bax were put on, whereas that of Bcl-2 was to be cut down when the Cyr61 was knockdown, and the apoptotic rates were gained in the TXNIP overexpression+Cyr61 knockdown group. Conclusions. The results of the study extrapolate that Cyr61 plays a dominant role in Ang II-induced podocyte apoptosis. Additionally, Cyr61 may mediate the Ang II-induced podocyte apoptosis by promoting the expression of TNXIP

<i>TARE1</i>, a Mutated <i>Copia</i>-Like LTR Retrotransposon Followed by Recent Massive Amplification in Tomato

<div><p>Long terminal repeat retrotransposons (LTR-RTs) are the major DNA components in flowering plants. Most LTR-RTs contain dinucleotides ‘TG’ and ‘CA’ at the ends of the two LTRs. Here we report the structure, evolution, and propensity of a <u>t</u>omato <u>a</u>typical <u>r</u>etrotransposon <u>e</u>lement (<i>TARE1</i>) with both LTRs starting as ‘TA’. This family is also characterized by high copy numbers (354 copies), short LTR size (194 bp), extremely low ratio of solo LTRs to intact elements (0.05∶1), recent insertion (most within 0.75∼1.75 million years, Mys), and enrichment in pericentromeric region. The majority (83%) of the <i>TARE1</i> elements are shared between <i>S. lycopersicum</i> and its wild relative <i>S. pimpinellifolium</i>, but none of them are found in potato. In the present study, we used shared LTR-RTs as molecular markers and estimated the divergence time between <i>S. lycopersicum</i> and <i>S. pimpinellifolium</i> to be <0.5 Mys. Phylogenetic analysis showed that the <i>TARE1</i> elements, together with two closely related families, <i>TARE2</i> and <i>TGRE1</i>, have formed a sub-lineage belonging to a <i>Copia</i>-like <i>Ale</i> lineage. Although <i>TARE1</i> and <i>TARE2</i> shared similar structural characteristics, the timing, scale, and activity of their amplification were found to be substantially different. We further propose a model wherein a single mutation from ‘G’ to ‘A’ in 3′ LTR followed by amplification is responsible for the origin of <i>TARE1</i>, thus providing evidence that the proliferation of a spontaneous mutation can be mediated by the amplification of LTR-RTs at the level of RNA.</p></div

Timing and activities of <i>TARE1</i> amplification in tomato.

<p>Timing and activities of <i>TARE1</i> amplification in tomato.</p

The distribution of <i>TARE1</i> elements along 12 tomato chromosomes.

<p>Each chromosome is represented by a vertical blue box. The insertions and the total repetitive DNA are marked by circles and purple regions, respectively. The potential centromeric regions are indicated by a black blur in the middle <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0068587#pone.0068587-TheTomatoGenome1" target="_blank">[16]</a>.</p