Outflows from active galactic nuclei: The BLR-NLR metallicity correlation

The metallicity of active galactic nuclei (AGNs), which can be measured by emission line ratios in their broad and narrow line regions (BLRs and NLRs), provides invaluable information about the physical connection between the different components of AGNs. From the archival databases of the International Ultraviolet Explorer, the Hubble Space Telescope and the Sloan Digital Sky Survey, we have assembled the largest sample available of AGNs which have adequate spectra in both the optical and ultraviolet bands to measure the narrow line ratio [N II]/H{\alpha} and also, in the same objects, the broad-line N V/C IV ratio. These permit the measurement of the metallicities in the NLRs and BLRs in the same objects. We find that neither the BLR nor the NLR metallicity correlate with black hole masses or Eddington ratios, but there is a strong correlation between NLR and BLR metallicities. This metallicity correlation implies that outflows from BLRs carry metal-rich gas to NLRs at characteristic radial distances of ~ 1.0 kiloparsec. This chemical connection provides evidence for a kinetic feedback of the outflows to their hosts. Metals transported into the NLR enhance the cooling of the ISM in this region, leading to local star formation after the AGNs turn to narrow line LINERs. This post-AGN star formation is predicted to be observable as an excess continuum emission from the host galaxies in the near infrared and ultraviolet, which needs to be further explored.Comment: 19 pages, 13 figures, 3 tables. Accepted for publication at MNRA

Population Genetic Structure of Monimopetalum chinense (Celastraceae), an Endangered Endemic Species of Eastern China

• Background and Aims Monimopetalum chinense (Celastraceae) standing for the monotypic genus is endemic to eastern China. Its conservation status is vulnerable as most populations are small and isolated. Monimopetalum chinense is capable of reproducing both sexually and asexually. The aim of this study was to understand the genetic structure of M. chinense and to suggest conservation strategies. • Methods One hundred and ninety individuals from ten populations sampled from the entire distribution area of M. chinense were investigated by using inter-simple sequence repeats (ISSR). • Key Results A total of 110 different ISSR bands were generated using ten primers. Low levels of genetic variation were revealed both at the species level (Isp = 0·183) and at the population level (Ipop = 0·083). High clonal diversity (D = 0·997) was found, and strong genetic differentiation among populations was detected (49·06 %). • Conclusions Small population size, possible inbreeding, limited gene flow due to short distances of seed dispersal, fragmentation of the once continuous range and subsequent genetic drift, may have contributed to shaping the population genetic structure of the specie

Comparative transcriptome analysis and marker development of two closely related Primrose species (Primula poissonii and Primula wilsonii)

BACKGROUND: Primula species are important early spring garden plants with a centre of diversity and speciation in the East Himalaya-Hengduan Mountains in Western China. Studies on population genetics, speciation and phylogeny of Primula have been impeded by a lack of genomic resources. In the present study, we sequenced the transcriptomes of two closely related primrose species, Primula poissonii and Primula wilsonii, using short reads on the Illumina Genome Analyzer platform. RESULTS: We obtained 55,284 and 55,011 contigs with N50 values of 938 and 1,085 for P. poissonii and P. wilsonii, respectively, and 6,654 pairs of putative orthologs were identified between the two species. Estimations of non-synonymous/synonymous substitution rate ratios for these orthologs indicated that 877 of the pairs may be under positive selection (Ka/Ks > 0.5), and functional enrichment analysis revealed that significant proportions of the orthologs were in the categories DNA repair, stress resistance, which may provide some hints as to how the two closely related Primula species adapted differentially to extreme environments, such as habitats characterized by aridity, high altitude and high levels of ionizing radiation. It was possible for the first time to estimate the divergence time between the radiated species pair, P. poissonii and P. wilsonii; this was found to be approximately 0.90 ± 0.57 Mya, which falls between the Donau and Gunz glaciation in the Middle Pleistocene. Primers based on 54 pairs of orthologous SSR-containing sequences between the two Primula species were designed and verified. About half of these pairs successfully amplified for both species. Of the 959 single copy nuclear genes shared by four model plants (known as APVO genes), 111 single copy nuclear genes were verified as being present in both Primula species and exon-anchored and intron-spanned primers were designed for use. CONCLUSION: We characterized the transcriptomes for the two Primula species, and produced an unprecedented amount of genomic resources for these important garden plants. Evolutionary analysis of these two Primula species not only revealed a more precise divergence time, but also provided some novel insights into how differential adaptations occurred in extreme habitats. Furthermore, we developed two sets of genetic markers, single copy nuclear genes and nuclear microsatellites (EST-SSR). Both these sets of markers will facilitate studies on the genetic improvement, population genetics and phylogenetics of this rapidly adapting taxon

Genetic diversity and core subset selection in ex situ seed collections of the banana crop wild relative Musa balbisiana

Crop wild relatives (CWRs) play a key role in crop breeding by providing beneficial trait characteristics for improvement of related crops. CWRs are more efficiently used in breeding if the plant material is genetically characterized, but the diversity in CWR genetic resources has often poorly been assessed. Seven seed collections of Musa balbisiana, an important CWR of dessert and cooking bananas, originating from three natural populations, two feral populations and two ex situ field collections were retrieved and their genetic diversity was quantified using 18 microsatellite markers to select core subsets that conserve the maximum genetic diversity. The highest genetic diversity was observed in the seed collections from natural populations of Yunnan, a region that is part of M. balbisiana's centre of origin. The seeds from the ex situ field collections were less genetically diverse, but contained unique variation with regards to the diversity in all seed collections. Seeds from feral populations displayed low genetic diversity. Core subsets that maximized genetic distance incorporated almost no seeds from the ex situ field collections. In contrast, core subsets that maximized allelic richness contained seeds from the ex situ field collections. We recommend the conservation and additional collection of seeds from natural populations, preferentially originating from the species' region of origin, and from multiple individuals in one population. We also suggest that the number of seeds used for ex situ seed bank regeneration must be much higher for the seed collections from natural populations

Multiwavelength Analysis of a Nearby Heavily Obscured AGN in NGC 449

We presented the multiwavelength analysis of a heavily obscured active galactic nucleus (AGN) in NGC 449. We first constructed a broadband X-ray spectrum using the latest NuSTAR and XMM-Newton data. Its column density ($\simeq 10^{24} \rm{cm}^{-2}$) and photon index ($\Gamma\simeq 2.4$) were reliably obtained by analyzing the broadband X-ray spectrum. However, the scattering fraction and the intrinsic X-ray luminosity could not be well constrained. Combined with the information obtained from the mid-infrared (mid-IR) spectrum and spectral energy distribution (SED) fitting, we derived its intrinsic X-ray luminosity ($\simeq 8.54\times 10^{42} \ \rm{erg\ s}^{-1}$) and scattering fraction ($f_{\rm{scat}}\simeq 0.26\%$). In addition, we also derived the following results: (1). The mass accretion rate of central AGN is about $2.54 \times 10^{-2} \rm{M}_\odot\ \rm{yr}^{-1}$, and the Eddington ratio is $8.39\times 10^{-2}$; (2). The torus of this AGN has a high gas-to-dust ratio ($N_{\rm H}/A_{\rm V}=8.40\times 10^{22}\ \rm{cm}^{-2}\ \rm{mag}^{-1}$); (3). The host galaxy and the central AGN are both in the early stage of co-evolution.Comment: 12 pages, 5 figures, 3 tables, Accepted to PAS

Ancient Polyploidy and Genome Evolution in Palms

Mechanisms of genome evolution are fundamental to our understanding of adaptation and the generation and maintenance of biodiversity, yet genome dynamics are still poorly characterized in many clades. Strong correlations between variation in genomic attributes and species diversity across the plant tree of life suggest that polyploidy or other mechanisms of genome size change confer selective advantages due to the introduction of genomic novelty. Palms (order Arecales, family Arecaceae) are diverse, widespread, and dominant in tropical ecosystems, yet little is known about genome evolution in this ecologically and economically important clade. Here, we take a phylogenetic comparative approach to investigate palm genome dynamics using genomic and transcriptomic data in combination with a recent, densely sampled, phylogenetic tree. We find conclusive evidence of a paleopolyploid event shared by the ancestor of palms but not with the sister clade, Dasypogonales. We find evidence of incremental chromosome number change in the palms as opposed to one of recurrent polyploidy. We find strong phylogenetic signal in chromosome number, but no signal in genome size, and further no correlation between the two when correcting for phylogenetic relationships. Palms thus add to a growing number of diverse, ecologically successful clades with evidence of whole-genome duplication, sister to a species-poor clade with no evidence of such an event. Disentangling the causes of genome size variation in palms moves us closer to understanding the genomic conditions facilitating adaptive radiation and ecological dominance in an evolutionarily successful, emblematic tropical clade

Deficiency of Mkrn2 causes abnormal spermiogenesis and spermiation, and impairs male fertility.

Although recent studies have shed insights on some of the potential causes of male infertility, new underlining molecular mechanisms still remain to be elucidated. Makorin-2 (Mkrn2) is an evolutionarily conserved gene whose biological functions are not fully known. We developed an Mrkn2 knockout mouse model to study the role of this gene, and found that deletion of Mkrn2 in mice led to male infertility. Mkrn2 knockout mice produced abnormal sperms characterized by low number, poor motility, and aberrant morphology. Disruption of Mkrn2 also caused failure of sperm release (spermiation failure) and misarrangement of ectoplasmic specialization (ES) in testes, thus impairing spermiogenesis and spermiation. To understand the molecular mechanism, we found that expression of Odf2, a vital protein in spermatogenesis, was significantly decreased. In addition, we found that expression levels of Odf2 were decreased in Mkrn2 knockout mice. We also found that MKRN2 was prominently expressed in the sperm of normal men, but was significantly reduced in infertile men. This result indicates that our finding is clinically relevant. The results of our study provided insights into a new mechanism of male infertility caused by the MKRN2 downregulation

Quantized octupole acoustic topological insulator

The Berry phase associated with energy bands in crystals can lead to quantized quantities, such as the quantization of electric dipole polarization in an insulator, known as a one-dimensional (1D) topological insulator (TI) phase. Recent theories have generalized such quantization from dipole to higher multipole moments, giving rise to the discovery of multipole TIs, which exhibit a cascade hierarchy of multipole topology at boundaries of boundaries: A quantized octupole moment in the three-dimensional (3D) bulk can induce quantized quadrupole moments on its two-dimensional (2D) surfaces, which then produce quantized dipole moments along 1D hinges. The model of 2D quadrupole TI has been realized in various classical structures, exhibiting zero-dimensional (0D) in-gap corner states. Here we report on the realization of a quantized octupole TI on the platform of a 3D acoustic metamaterial. By direct acoustic measurement, we observe 0D corner states, 1D hinge states, 2D surface states, and 3D bulk states, as a consequence of the topological hierarchy from octupole moment to quadrupole and dipole moment. The critical conditions of forming a nontrivial octupole moment are further demonstrated by comparing with another two samples possessing a trivial octupole moment. Our work thus establishes the multipole topology and its full cascade hierarchy in 3D geometries

The fast light of CsI(Na) crystals

The responds of different common alkali halide crystals to alpha-rays and gamma-rays are tested in our research. It is found that only CsI(Na) crystals have significantly different waveforms between alpha and gamma scintillations, while others have not this phenomena. It is suggested that the fast light of CsI(Na) crystals arises from the recombination of free electrons with self-trapped holes of the host crystal CsI. Self-absorption limits the emission of fast light of CsI(Tl) and NaI(Tl) crystals.Comment: 5 pages, 11 figures Submit to Chinese Physics