scholarly journals Comparative Mitogenomic Analysis Reveals Gene and Intron Dynamics in Rubiaceae and Intra-Specific Diversification in Damnacanthus indicus

2021 ◽  
Vol 22 (13) ◽  
pp. 7237
Author(s):  
Eun-Kyeong Han ◽  
Won-Bum Cho ◽  
Ichiro Tamaki ◽  
In-Su Choi ◽  
Jung-Hyun Lee
Keyword(s):  
Structural Changes ◽  
Mitochondrial Gene ◽  
Mitochondrial Protein ◽  
Sequence Divergence ◽  
Direct Repeat ◽  
Type A ◽  
Structural Rearrangement ◽  
Species Level ◽  
The Other ◽  
Intron Content

The dynamic evolution of mitochondrial gene and intron content has been reported across the angiosperms. However, a reference mitochondrial genome (mitogenome) is not available in Rubiaceae. The phylogenetic utility of mitogenome data at a species level is rarely assessed. Here, we assembled mitogenomes of six Damnacanthus indicus (Rubiaceae, Rubioideae) representing two varieties (var. indicus and var. microphyllus). The gene and intron content of D. indicus was compared with mitogenomes from representative angiosperm species and mitochondrial contigs from the other Rubiaceae species. Mitogenome structural rearrangement and sequence divergence in D. indicus were analyzed in six individuals. The size of the mitogenome in D. indicus varied from 417,661 to 419,435 bp. Comparing the number of intact mitochondrial protein-coding genes in other Gentianales taxa (38), D. indicus included 32 genes representing several losses. The intron analysis revealed a shift from cis to trans splicing of a nad1 intron (nad1i728) in D. indicus and it is a shared character with the other four Rubioideae taxa. Two distinct mitogenome structures (type A and B) were identified. Two-step direct repeat-mediated recombination was proposed to explain structural changes between type A and B mitogenomes. The five individuals from two varieties in D. indicus diverged well in the whole mitogenome-level comparison with one exception. Collectively, our study elucidated the mitogenome evolution in Rubiaceae along with D. indicus and showed the reliable phylogenetic utility of the whole mitogenome data at a species-level evolution.

Six new species of the Cyrtodactylus intermedius complex (Squamata: Gekkonidae) from the Cardamom Mountains and associated highlands of Southeast Asia

Zootaxa ◽  
2019 ◽  
Vol 4554 (1) ◽  
pp. 1 ◽  
Author(s):  
MATTHEW L. MURDOCH ◽  
L. LEE GRISMER ◽  
PERRY L. JR. WOOD ◽  
THY NEANG ◽  
NIKOLAY A. POYARKOV ◽  
...  
Keyword(s):  
New Species ◽  
Mitochondrial Gene ◽  
Sequence Divergence ◽  
Color Pattern ◽  
Sensu Stricto ◽  
Species Level ◽  
Base Pairs ◽  
Taxonomic Analysis ◽  
Karst Formation ◽  
Geographic Regions

An integrative taxonomic analysis using color pattern, morphology, and 1449 base pairs of the ND2 mitochondrial gene and its five flanking tRNAs demonstrated that eight species-level lineages occur within the Cyrtodactylus intermedius complex (Cyrtodactylus intermedius sensu stricto, C. phuquocensis and related populations) of the Cardamom mountains and associated highlands that have a sequence divergence ranging 3.4–8.9%. Additionally, each lineage is discretely diagnosable from one another based on morphology and color pattern and most occur in specific geographic regions (upland areas, karst formations or islands) that prevent or greatly restrict interpopulation gene flow. Six of these lineages were masquerading under the nomen C. intermedius and are described as the following: Cyrtodactylus auralensis sp. nov. endemic to Phnom Aural, the highest mountain in Cambodia; C. bokorensis sp. nov. endemic to the Bokor Plateau, Cambodia; C. cardamomensis sp. nov. from the main block of the Cardamom mountains; C. thylacodactylus sp. nov. endemic to Phnom Dalai the northernmost peak of the Cardamom mountains; C. laangensis sp. nov. endemic to the Phnom Laang karst formation, Cambodia; and C. septimontium sp. nov. from the Bảy Núi Hills of southwest Vietnam. 

scholarly journals Changes in Value Orientations in Serbia, 2003–2018 . Patriarchy, Authoritarianism and Nationalism

Südosteuropa ◽  
2020 ◽  
Vol 68 (3) ◽  
pp. 408-431
Author(s):  
Irena Petrović ◽  
Marija Radoman
Keyword(s):  
Structural Changes ◽  
Empirical Studies ◽  
Value Orientations ◽  
The Other ◽  
Social Changes ◽  
Ethnic Nationalism ◽  
Political Situation ◽  
Other Hand ◽  
The Social ◽  
Private And Public

AbstractThe authors analyze the changes in value patterns—patriarchy, authoritarianism and nationalism—in Serbia in the context of the social changes that have marked the postsocialist transformation period. They focus on the extent and intensity of two sub-patterns within each of these three basic value patterns: private and public patriarchy, general and specific authoritarianism, organic (natural) and ethnic nationalism. The conclusions about changes in these value patterns are drawn on the basis of three empirical studies conducted in 2003, 2012, and 2018. They show the prevalence of private patriarchy, general authoritarianism, and organic (natural) nationalism over their counterparts. Private patriarchy has weakened, which is largely to be explained by the significant structural changes in Serbia. On the other hand, support of general authoritarianism and organic (natural) nationalism has been on the rise, which clearly mirrors the unfavorable economic and political situation in the country.

scholarly journals Comparative analysis and phylogenetic investigation of Hong Kong Ilex chloroplast genomes

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Bobby Lim-Ho Kong ◽  
Hyun-Seung Park ◽  
Tai-Wai David Lau ◽  
Zhixiu Lin ◽  
Tae-Jin Yang ◽  
...  
Keyword(s):  
Hong Kong ◽  
Comparative Analysis ◽  
Phylogenetic Relationships ◽  
Species Level ◽  
The Other ◽  
Trna Genes ◽  
Protein Coding ◽  
Chloroplast Genomes ◽  
Plant Group ◽  
Ilex Rotunda

AbstractIlex is a monogeneric plant group (containing approximately 600 species) in the Aquifoliaceae family and one of the most commonly used medicinal herbs. However, its taxonomy and phylogenetic relationships at the species level are debatable. Herein, we obtained the complete chloroplast genomes of all 19 Ilex types that are native to Hong Kong. The genomes are conserved in structure, gene content and arrangement. The chloroplast genomes range in size from 157,119 bp in Ilex graciliflora to 158,020 bp in Ilex kwangtungensis. All these genomes contain 125 genes, of which 88 are protein-coding and 37 are tRNA genes. Four highly varied sequences (rps16-trnQ, rpl32-trnL, ndhD-psaC and ycf1) were found. The number of repeats in the Ilex genomes is mostly conserved, but the number of repeating motifs varies. The phylogenetic relationship among the 19 Ilex genomes, together with eight other available genomes in other studies, was investigated. Most of the species could be correctly assigned to the section or even series level, consistent with previous taxonomy, except Ilex rotunda var. microcarpa, Ilex asprella var. tapuensis and Ilex chapaensis. These species were reclassified; I. rotunda was placed in the section Micrococca, while the other two were grouped with the section Pseudoaquifolium. These studies provide a better understanding of Ilex phylogeny and refine its classification.

scholarly journals Involvement of loop 5 lysine residues and the N-terminal β-hairpin of the ribotoxin hirsutellin A on its insecticidal activity

2016 ◽  
Vol 397 (2) ◽  
pp. 135-145 ◽  
Author(s):  
Miriam Olombrada ◽  
Lucía García-Ortega ◽  
Javier Lacadena ◽  
Mercedes Oñaderra ◽  
José G. Gavilanes ◽  
...  
Keyword(s):  
Active Sites ◽  
Structural Changes ◽  
The Other ◽  
Spatial Proximity ◽  
Ribonucleolytic Activity ◽  
The Family ◽  
Lysine Residues ◽  
Hirsutella Thompsonii ◽  
Close Spatial Proximity ◽  
High Degree

Abstract Ribotoxins are cytotoxic members of the family of fungal extracellular ribonucleases best represented by RNase T1. They share a high degree of sequence identity and a common structural fold, including the geometric arrangement of their active sites. However, ribotoxins are larger, with a well-defined N-terminal β-hairpin, and display longer and positively charged unstructured loops. These structural differences account for their cytotoxic properties. Unexpectedly, the discovery of hirsutellin A (HtA), a ribotoxin produced by the invertebrate pathogen Hirsutella thompsonii, showed how it was possible to accommodate these features into a shorter amino acid sequence. Examination of HtA N-terminal β-hairpin reveals differences in terms of length, charge, and spatial distribution. Consequently, four different HtA mutants were prepared and characterized. One of them was the result of deleting this hairpin [Δ(8-15)] while the other three affected single Lys residues in its close spatial proximity (K115E, K118E, and K123E). The results obtained support the general conclusion that HtA active site would show a high degree of plasticity, being able to accommodate electrostatic and structural changes not suitable for the other previously known larger ribotoxins, as the variants described here only presented small differences in terms of ribonucleolytic activity and cytotoxicity against cultured insect cells.

Anatomie, histologie et affinités de l'appareil séricigène des Hersilia Sav. et Aud. (Araneae: Hersiliidae)

1984 ◽  
Vol 62 (1) ◽  
pp. 97-106 ◽  
Author(s):  
Jacqueline Kovoor
Keyword(s):  
Type A ◽  
The Other ◽  
Secretory Cells ◽  
Evolutionary Stage ◽  
Type B ◽  
Outer Coat ◽  
Silk Glands ◽  
Single Protein

Although hersiliid spiders do not spin any webs, their silk glands, which belong to six types, are large and complex. Two groups of ampullate glands, one opening on the anterior spinnerets and the other on the median spinnerets, secrete two proteins each. About 180 pyriform glands are clearly bipartite. Over 200 type A aciniform glands opening on the median and posterior spinnerets are made up of three categories of secretory cells. Silk from these glands consists of two proteins (core and outer coat) joined together by an intermediary layer of acidic glycoprotein. All the 160 type B aciniform glands opening on the posterior spinnerets secrete a single protein. Fifty tubuliform glands opening on the median and posterior spinnerets produce two proteins, one of which is coloured. As in Urocteinae, long posterior spinnerets and large, numerous aciniform and tubuliform glands are correlated with swathing of prey and egg-cocoon construction. In Lycosidae and Agelenidae, the ampullate glands show the same number and distribution according to the spinnerets. However, anatomical and histochemical features of hersiliid aciniform and ampullate glands are close to those of some Araneoidea. Apart from peculiar characteristics, silk glands of Hersilia might represent an intermediate evolutionary stage towards Araneoidea.

scholarly journals Mitogenome Analysis of Four Lamiinae Species (Coleoptera: Cerambycidae) and Gene Expression Responses by Monochamus alternatus When Infected with the Parasitic Nematode, Bursaphelenchus mucronatus

Insects ◽  
2021 ◽  
Vol 12 (5) ◽  
pp. 453
Author(s):  
Zi-Yi Zhang ◽  
Jia-Yin Guan ◽  
Yu-Rou Cao ◽  
Xin-Yi Dai ◽  
Kenneth B. Storey ◽  
...  
Keyword(s):  
Gene Expression ◽  
Phylogenetic Trees ◽  
Mitochondrial Gene ◽  
Mitochondrial Protein ◽  
Pine Wilt Disease ◽  
Bursaphelenchus Xylophilus ◽  
Monochamus Alternatus ◽  
Genome Database ◽  
Protein Coding ◽  
Nd5 Gene

We determined the mitochondrial gene sequence of Monochamus alternatus and three other mitogenomes of Lamiinae (Insect: Coleoptera: Cerambycidae) belonging to three genera (Aulaconotus, Apriona and Paraglenea) to enrich the mitochondrial genome database of Lamiinae and further explore the phylogenetic relationships within the subfamily. Phylogenetic trees of the Lamiinae were built using the Bayesian inference (BI) and maximum likelihood (ML) methods and the monophyly of Monochamus, Anoplophora, and Batocera genera was supported. Anoplophora chinensis, An. glabripennis and Aristobia reticulator were closely related, suggesting they may also be potential vectors for the transmission of the pine wood pathogenic nematode (Bursaphelenchus xylophilus) in addition to M. alternatus, a well-known vector of pine wilt disease. There is a special symbiotic relationship between M. alternatus and Bursaphelenchus xylophilus. As the native sympatric sibling species of B. xylophilus, B. mucronatus also has a specific relationship that is often overlooked. The analysis of mitochondrial gene expression aimed to explore the effect of B. mucronatus on the energy metabolism of the respiratory chain of M. alternatus adults. Using RT-qPCR, we determined and analyzed the expression of eight mitochondrial protein-coding genes (COI, COII, COIII, ND1, ND4, ND5, ATP6, and Cty b) between M. alternatus infected by B. mucronatus and M. alternatus without the nematode. Expression of all the eight mitochondrial genes were up-regulated, particularly the ND4 and ND5 gene, which were up-regulated by 4–5-fold (p < 0.01). Since longicorn beetles have immune responses to nematodes, we believe that their relationship should not be viewed as symbiotic, but classed as parasitic.

The infrared spectrum of di-imide near 7.6 μm

1981 ◽  
Vol 59 (5) ◽  
pp. 663-672 ◽  
Author(s):  
K-E. J. Hallin ◽  
J. W. C. Johns ◽  
A. Trombetti
Keyword(s):  
Infrared Spectrum ◽  
Gas Phase ◽  
Type A ◽  
Phase Spectrum ◽  
The Other ◽  
Mode Analysis ◽  
Simultaneous Presence ◽  
Torsional Mode ◽  
Bending Mode ◽  
Type C

The gas phase spectrum of N2H2 has been investigated in the region of 7.6 μm at a resolution of about 0.06cm−1. Two bands have been identified; one, near 1288 cm−1, is a type C band and must correspond to ν4 (the hitherto unidentified Au torsional mode), and the other, near 1317 cm−1, is a type A–B hybrid and corresponds to ν6 (the Bu bending mode). Analysis of the spectrum is complicated by the simultaneous presence of strong A-type and B-type Coriolis interactions which couple the observed levels.

scholarly journals Relative Earnings and Manpower Allocation in Developing Economies

1969 ◽  
Vol 9 (1) ◽  
pp. 14-34 ◽  
Author(s):  
Lloyd G. Reynolds
Keyword(s):  
Economic Growth ◽  
Subject Matter ◽  
Structural Changes ◽  
Developing Economies ◽  
Developed Countries ◽  
The Other ◽  
Labour Economics ◽  
Economic Behaviour ◽  
Agriculture Industry ◽  
Starting Point

The less developed countries (LDC) present two kinds of challenge to economists. First, they invite us to develop hypotheses about how economic growth begins and about structural changes during the early decades of growth. Second, they provide a fresh terrain on which specialists in particular subject-matter areas can test accepted notions about economic behaviour. For investigations in labour economics, the structure of earnings provides a convenient starting point. (It is best to say "earnings" rather than "wages" because most workers in the LDC's are self-emplqyed.) Analysis of earnings requires an examination of manpower supplies and requirements. This leads into the economics of agriculture, industry, government, and other labour demanding sectors on one side, and into a study of education and other skill-producing agencies, on the other. Thus by starting with the earnings structure, one is led rather directly into the heart of the economy.

scholarly journals Assessing universality of DNA barcoding in geographically isolated selected desert medicinal species of Fabaceae and Poaceae

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4499 ◽  
Author(s):  
Aisha Tahir ◽  
Fatma Hussain ◽  
Nisar Ahmed ◽  
Abdolbaset Ghorbani ◽  
Amer Jamil
Keyword(s):  
Dna Barcoding ◽  
Species Identification ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Sequence Divergence ◽  
Species Level ◽  
Practical Implementation ◽  
Medicinal Species ◽  
Level Identification ◽  
Geographically Isolated

In pursuit of developing fast and accurate species-level molecular identification methods, we tested six DNA barcodes, namely ITS2, matK, rbcLa, ITS2+matK, ITS2+rbcLa, matK+rbcLa and ITS2+matK+rbcLa, for their capacity to identify frequently consumed but geographically isolated medicinal species of Fabaceae and Poaceae indigenous to the desert of Cholistan. Data were analysed by BLASTn sequence similarity, pairwise sequence divergence in TAXONDNA, and phylogenetic (neighbour-joining and maximum-likelihood trees) methods. Comparison of six barcode regions showed that ITS2 has the highest number of variable sites (209/360) for tested Fabaceae and (106/365) Poaceae species, the highest species-level identification (40%) in BLASTn procedure, distinct DNA barcoding gap, 100% correct species identification in BM and BCM functions of TAXONDNA, and clear cladding pattern with high nodal support in phylogenetic trees in both families. ITS2+matK+rbcLa followed ITS2 in its species-level identification capacity. The study was concluded with advocating the DNA barcoding as an effective tool for species identification and ITS2 as the best barcode region in identifying medicinal species of Fabaceae and Poaceae. Current research has practical implementation potential in the fields of pharmaco-vigilance, trade of medicinal plants and biodiversity conservation.

scholarly journals A new cryptic arboreal species of the Cyrtodactylus brevipalmatus group (Squamata: Gekkonidae) from the uplands of western Thailand

2021 ◽  
Vol 71 ◽  
pp. 723-746
Author(s):  
L. Lee Grismer ◽  
Chatmongkon Suwannapoom ◽  
Parinya Pawangkhanant ◽  
Roman A. Nazarov ◽  
Platon V. Yushchenko ◽  
...  
Keyword(s):  
New Species ◽  
Mitochondrial Gene ◽  
Sequence Divergence ◽  
Field Work ◽  
Morphological Characters ◽  
Sister Species ◽  
Base Pairs ◽  
Meristic Characters ◽  
Nadh Dehydrogenase Subunit 2 ◽  
A New Species

The first integrative taxonomic analysis of the Cyrtodactylus brevipalmatus group of Southeast Asia recovered two newly discovered populations from the Tenasserim Mountains in Suan Phueng District, Ratchaburi Province, Thailand as a new species described here as C. rukhadeva sp. nov. Based on 1397 base pairs of the mitochondrial gene NADH dehydrogenase subunit 2 (ND2), C. rukhadeva sp. nov. is the well-supported sister species to a clade containing three undescribed species, C. ngati, and C. cf. interdigitalis with a large uncorrected pairwise sequence divergence from other species in the brevipalmatus group ranging from 15.4–22.1%. Cyrtodactylus elok and C. brevipalmatus are recovered as poorly supported sister species and the well-supported sister lineage to the remainder of the brevipalmatus group. Cyrtodactylus rukhadeva sp. nov. is putatively diagnosable on the basis of a number of meristic characters and easily separated from the remaining species of the brevipalmatus group by a number of discrete morphological characters as well as its statistically significant wide separation in multivariate morphospace. The discovery of C. rukhadeva sp. nov. continues to underscore the unrealized herpetological diversity in the upland forests of the Tenasserim Mountains and that additional field work will undoubtedly result in the discovery of additional new species.

Sign in / Sign up

Export Citation Format

Share Document