scholarly journals Comparative Analysis of Re-Annotated Genes Provides Insight into Evolutionary Divergence and Expressions of Aquaporin Family in Pepper

Plants ◽  
2021 ◽  
Vol 10 (6) ◽  
pp. 1039
Author(s):  
Yeon Mi Lee ◽  
Geun Young Chae ◽  
Min Kyung Kim ◽  
Seungill Kim
Keyword(s):  
Vital Role ◽  
Genomic Diversity ◽  
Chromosome 1 ◽  
Evolutionary Divergence ◽  
Solanaceae Species ◽  
Genomic Study ◽  
Specific Subgroup ◽  
Specific Expansion ◽  
Living Organisms ◽  
Insight Into

Aquaporins (AQPs) are known to have a vital role in water transport in all living organisms including agriculturally important crops, but a comprehensive genomic study of AQPs in pepper has not been implemented. Here, we updated previous gene annotations and generated a total of 259 AQP genes from five plants, including pepper. Phylogenetic and motif analyses revealed that a large proportion of pepper AQP genes belong to the specific subgroup of tonoplast intrinsic protein (TIP) subfamily, TIP4. Chromosomal localization and estimated duplication times illustrated that genes in TIP4 formed a tandem array on the short arm of chromosome 1, resulting from pepper-specific expansion after its divergence with Solanaceae species. Transcriptome analyses under various abiotic stress conditions revealed that transport-, photosystem-, and thylakoid-related genes were generally enriched in expression clusters containing AQP genes in pepper. These results provide valuable genomic resources and insight into the evolutionary mechanism that generate genomic diversity of the AQP gene family in pepper.

scholarly journals Sorghum pan-genome explores the functional utility to accelerate the genetic gain

2021 ◽  
Author(s):  
Pradeep Ruperao ◽  
Nepolean Thirunavukkarasu ◽  
Prasad Gandham ◽  
Sivasubramani S. ◽  
Govindaraj M ◽  
...  
Keyword(s):  
Genetic Gain ◽  
Core Genome ◽  
Agronomic Traits ◽  
Crop Improvement ◽  
Genomic Diversity ◽  
Pan Genome ◽  
Genome Association ◽  
Reference Genomes ◽  
Insight Into ◽  
Variable Genes

AbstractSorghum (Sorghum bicolor L.) is one of the most important food crops in the arid and rainfed production ecologies. It is a part of resilient farming and is projected as a smart crop to overcome the food and nutritional challenges in the developing world. The development and characterisation of the sorghum pan-genome will provide insight into genome diversity and functionality, supporting sorghum improvement. We built a sorghum pan-genome using reference genomes as well as 354 genetically diverse sorghum accessions belonging to different races. We explored the structural and functional characteristics of the pan-genome and explain its utility in supporting genetic gain. The newly-developed pan-genome has a total of 35,719 genes, a core genome of 16,821 genes and an average of 32,795 genes in each cultivar. The variable genes are enriched with environment responsive genes and classify the sorghum accessions according to their race. We show that 53% of genes display presence-absence variation, and some of these variable genes are predicted to be functionally associated with drought traits. Using more than two million SNPs from the pan-genome, association analysis identified 398 SNPs significantly associated with important agronomic traits, of which, 92 were in genes. Drought gene expression analysis identified 1,788 genes that are functionally linked to different conditions, of which 79 were absent from the reference genome assembly. This study provides comprehensive genomic diversity resources in sorghum which can be used in genome assisted crop improvement.

scholarly journals INSIGHT INTO PHARMACEUTICAL IMPORTANCE OF BRYOPHYTES

2017 ◽  
Vol 4 (2) ◽  
pp. 84-88
Author(s):  
Greeshma G.M ◽  
Manoj G.S ◽  
Murugan K
Keyword(s):  
Arid Regions ◽  
Soil Formation ◽  
Vital Role ◽  
Economic Importance ◽  
Peat Moss ◽  
Biotic Factor ◽  
Plant Parts ◽  
Average Size ◽  
Water Holding ◽  
Insight Into

Historically, Bryophytes were accounted to be a monophyletic group and were placed in an inclusive Bryophyta. Some species are aquatic though some can adapt and live in arid regions. Bryophytes size ranges from microscopic to 12 inches in length, the average size is between 0.5 – 2 inches long and colors vary from green to black and sometimes colorless. Bryophytes plays a vital role in the biosphere even their size is insignificant. As a biotic factor in the environment, they provide food for numerous herbivorous birds and animals. They prevent soil erosion by carpeting the soil. Bryophytes cause the outer portion of rock to slowly crumble as they grow with lichens on rock surfaces. And because of it they contribute and help to soil formation. When mixed with the soil, bryophytes increase the water-holding capacity of the soil and the amount of organic matter in the soil. Some bryophytes like sphagnum or peat moss has some economicimportance. It is used as packing material for breakable or fragile objects such as figurines and dinnerware’s. It is also used as packing materials for transporting plants and plant parts, since sphagnum holds water and hence prevent plants from drying during transport. As a whole, bryophytes are of little economic importance to man.

scholarly journals Polyacrylamide Bead Sensors for in vivo Quantification of Cell-Scale Stress in Zebrafish Development

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
N. Träber ◽  
K. Uhlmann ◽  
S. Girardo ◽  
G. Kesavan ◽  
K. Wagner ◽  
...  
Keyword(s):  
Computational Analysis ◽  
Tissue Level ◽  
Quantitative Investigation ◽  
Pulsatile Pressure ◽  
Spatio Temporal ◽  
Stress Sensing ◽  
Living Organisms ◽  
Insight Into

AbstractMechanical stress exerted and experienced by cells during tissue morphogenesis and organ formation plays an important role in embryonic development. While techniques to quantify mechanical stresses in vitro are available, few methods exist for studying stresses in living organisms. Here, we describe and characterize cell-like polyacrylamide (PAAm) bead sensors with well-defined elastic properties and size for in vivo quantification of cell-scale stresses. The beads were injected into developing zebrafish embryos and their deformations were computationally analyzed to delineate spatio-temporal local acting stresses. With this computational analysis-based cell-scale stress sensing (COMPAX) we are able to detect pulsatile pressure propagation in the developing neural rod potentially originating from polarized midline cell divisions and continuous tissue flow. COMPAX is expected to provide novel spatio-temporal insight into developmental processes at the local tissue level and to facilitate quantitative investigation and a better understanding of morphogenetic processes.

scholarly journals Polyamine Action under Metal/Metalloid Stress: Regulation of Biosynthesis, Metabolism, and Molecular Interactions

2019 ◽  
Vol 20 (13) ◽  
pp. 3215 ◽  
Author(s):  
Mirza Hasanuzzaman ◽  
Haifa Abdulaziz S. Alhaithloul ◽  
Khursheda Parvin ◽  
M.H.M. Borhannuddin Bhuyan ◽  
Mohsin Tanveer ◽  
...  
Keyword(s):  
Stress Tolerance ◽  
Defense Mechanism ◽  
Vital Role ◽  
Cultivated Plants ◽  
Nitric Oxides ◽  
Growth Physiology ◽  
Physiological Processes ◽  
Enzymatic Regulation ◽  
Regulation Of Biosynthesis ◽  
Living Organisms

Polyamines (PAs) are found in all living organisms and serve many vital physiological processes. In plants, PAs are ubiquitous in plant growth, physiology, reproduction, and yield. In the last decades, PAs have been studied widely for exploring their function in conferring abiotic stresses (salt, drought, and metal/metalloid toxicity) tolerance. The role of PAs in enhancing antioxidant defense mechanism and subsequent oxidative stress tolerance in plants is well-evident. However, the enzymatic regulation in PAs biosynthesis and metabolism is still under research and widely variable under various stresses and plant types. Recently, exogenous use of PAs, such as putrescine, spermidine, and spermine, was found to play a vital role in enhancing stress tolerance traits in plants. Polyamines also interact with other molecules like phytohormones, nitric oxides, trace elements, and other signaling molecules to providing coordinating actions towards stress tolerance. Due to the rapid industrialization metal/metalloid(s) contamination in the soil and subsequent uptake and toxicity in plants causes the most significant yield loss in cultivated plants, which also hamper food security. Finding the ways in enhancing tolerance and remediation mechanism is one of the critical tasks for plant biologists. In this review, we will focus the recent update on the roles of PAs in conferring metal/metalloid(s) tolerance in plants.

scholarly journals Trade-offs between burrowing and biting force in fossorial scincid lizards?

2020 ◽  
Vol 130 (2) ◽  
pp. 310-319
Author(s):  
Margot Le Guilloux ◽  
Aurélien Miralles ◽  
John Measey ◽  
Bieke Vanhooydonck ◽  
James C O’Reilly ◽  
...  
Keyword(s):  
Vital Role ◽  
Cranial Morphology ◽  
Energetic Cost ◽  
Evolutionary Divergence ◽  
Trade Offs ◽  
Large Head ◽  
Functional Advantage ◽  
Phenotypic Diversification ◽  
And Performance ◽  
The Brain

Abstract Trade-offs are thought to be important in constraining evolutionary divergence as they may limit phenotypic diversification. The cranial system plays a vital role in many functions including defensive, territorial, predatory and feeding behaviours in addition to housing the brain and sensory systems. Consequently, the morphology of the cranial system is affected by a combination of selective pressures that may induce functional trade-offs. Limbless, head-first burrowers are thought to be constrained in their cranial morphology as narrow heads may provide a functional advantage for burrowing. However, having a wide and large head is likely beneficial in terms of bite performance. We used 15 skink species to test for the existence of trade-offs between maximal push and bite forces, and explored the patterns of covariation between external head and body morphology and performance. Our data show that there is no evidence of a trade-off between bite and burrowing in terms of maximal force. Species that generate high push forces also generate high bite forces. Our data also show that overall head size covaries with both performance traits. However, future studies exploring trade-offs between force and speed or the energetic cost of burrowing may reveal other trade-offs.

scholarly journals Subtilosin Production by Two Bacillus subtilis Subspecies and Variance of the sbo-alb Cluster

2004 ◽  
Vol 70 (4) ◽  
pp. 2349-2353 ◽  
Author(s):  
Torsten Stein ◽  
Stefanie Düsterhus ◽  
Anke Stroh ◽  
Karl-Dieter Entian
Keyword(s):  
Bacillus Subtilis ◽  
Gene Locus ◽  
Start Codon ◽  
Evolutionary Divergence ◽  
Bacillus Atrophaeus ◽  
Entire Sequence ◽  
High Level ◽  
Transcriptional Start Sites ◽  
Extension Analysis ◽  
Insight Into

ABSTRACT Eight different Bacillus subtilis strains and Bacillus atrophaeus were found to produce the bacteriocin subtilosin A. On the basis of the subtilosin gene (sbo) sequences two distinct classes of B. subtilis strains were distinguished, and they fell into the two B. subtilis subspecies (B. subtilis subsp. subtilis and B. subtilis subsp. spizizenii). The entire sequence of the subtilosin gene cluster of a B. subtilis subsp. spizizenii strain, B. subtilis ATCC 6633, was determined. This sequence exhibited a high level of homology to the sequence of the sbo-alb gene locus of B. subtilis 168. By using primer extension analysis the transcriptional start sites of sbo in B. subtilis strains ATCC 6633 and 168 were found to be 47 and 45 bp upstream of the sbo start codon, respectively. Our results provide insight into the incipient evolutionary divergence of the two B. subtilis subspecies.

Latrophilin mediates insecticides susceptibility and fecundity through two carboxylesterases, esterase4 and esterase6, in Tribolium castaneum

2019 ◽  
Vol 109 (4) ◽  
pp. 534-543 ◽  
Author(s):  
L. Wei ◽  
S. Gao ◽  
W. Xiong ◽  
J. Liu ◽  
J. Mao ◽  
...  
Keyword(s):  
Tribolium Castaneum ◽  
Molecular Mechanisms ◽  
Vital Role ◽  
Egg Laying ◽  
Egg Hatching ◽  
Compensatory Response ◽  
Physiological Processes ◽  
Similar Phenotype ◽  
G Protein Coupled ◽  
Insight Into

AbstractLatrophilin (LPH) is known as an adhesion G-protein-coupled receptor which involved in multiple physiological processes in organisms. Previous studies showed that lph not only involved the susceptibility to anticholinesterase insecticides but also affected fecundity in Tribolium castaneum. However, its regulatory mechanisms in these biological processes are still not clear. Here, we identified two potential downstream carboxylesterase (cce) genes of Tclph, esterase4 and esterase6, and further characterized their interactions with Tclph. After treatment of T. castaneum larvae with carbofuran or dichlorvos insecticides, the transcript levels of Tcest4 and Tcest6 were significantly induced from 12 to 72 h. RNAi against Tcest4 or Tcest6 led to the higher mortality compared with the controls after the insecticides treatment, suggesting that these two genes play a vital role in detoxification of insecticides in T. castaneum. Furthermore, with insecticides exposure to Tclph knockdown beetles, the expression of Tcest4 was upregulated but Tcest6 was downregulated, indicating that beetles existed a compensatory response against the insecticides. Additionally, RNAi of Tcest6 resulted in 43% reductions in female egg laying and completely inhibited egg hatching, which showed the similar phenotype as that of Tclph knockdown. These results indicated that Tclph affected fecundity by positively regulating Tcest6 expression. Our findings will provide a new insight into the molecular mechanisms of Tclph involved in physiological functions in T. castaneum.

scholarly journals A first insight into the genomic diversity of Leptospira strains isolated from patients in Cuba

PLoS ONE ◽  
2020 ◽  
Vol 15 (2) ◽  
pp. e0229673
Author(s):  
Angel A. Noda ◽  
Linda Grillová ◽  
Jean-Francois Mariet ◽  
Nadiezda B. Paiffer ◽  
Yanet C. Ruiz ◽  
...  
Keyword(s):  
Genomic Diversity ◽  
Insight Into

scholarly journals Cadmium Pollution in the Tourism Environment: A Literature Review

Geosciences ◽  
2020 ◽  
Vol 10 (6) ◽  
pp. 242
Author(s):  
Anna V. Mikhailenko ◽  
Dmitry A. Ruban ◽  
Vladimir A. Ermolaev ◽  
A.J. (Tom) van Loon
Keyword(s):  
Human Exposure ◽  
Toxic Metal ◽  
Human Environment ◽  
Incomplete Knowledge ◽  
Tourist Destinations ◽  
The Past ◽  
The Common ◽  
Living Organisms ◽  
Critical Regions ◽  
Insight Into

Cadmium is a highly-toxic metal, and, its environmental occurrence and human exposure consequently deserve close attention. The insight into the relationships between cadmium and tourism relations has deepened during the past three decades and the research into this relationship is reviewed. For this purpose, 83 relevant publications (mainly articles in international journals) were analyzed. It was found that investigation of Cd in the tourism environment took place in all continents (except Antarctica) and has intensified since the mid-2000s; Chinese researchers are the most active contributors. The Cd occurrence in air, living organisms, sediments, soil, suspended particular matter, water, and of the human environment has been studied. It has become clear that tourism contributes to Cd pollution (particularly, by hotel wastewater and increased traffic), and, vice versa, Cd pollution of beaches, coastal waters, food, urban parks, etc. creates risks for tourists and increases human exposure to this toxic metal. Both mechanisms have received equal attention. Examples concern many places worldwide, with the Mediterranean and Central and Eastern Europe as apparently critical regions. Our significantly incomplete knowledge of the relationships between cadmium and tourism must be ascribed to the common oversimplification of these relationships and to the scarcity or even absence of information supplied by the most important tourist destinations. The present review demonstrates that more studies of heavy metals and, particularly, Cd in the tourism environment are needed.

scholarly journals Generalized Entropy Generation Expressions in Gases

Entropy ◽  
2019 ◽  
Vol 21 (4) ◽  
pp. 330 ◽  
Author(s):  
Michael Peters
Keyword(s):  
Entropy Generation ◽  
Local Equilibrium ◽  
Approximation Error ◽  
Expansion Method ◽  
Scaling Analysis ◽  
Generalized Entropy ◽  
Process Gas ◽  
Operating Process ◽  
Specific Expansion ◽  
Insight Into

In this study, we generalize our previous methods for obtaining entropy generation in gases without the need to carry through a specific expansion method, such as the Chapman–Enskog method. The generalization, which is based on a scaling analysis, allows for the study of entropy generation in gases for any arbitrary state of the gas and consistently across the conservation equations of mass, momentum, energy, and entropy. Thus, it is shown that it is theoretically possible to alter specific expressions and associated physical outcomes for entropy generation by changing the operating process gas state to regions significantly different than the perturbed, local equilibrium or Chapman–Enskog type state. Such flows could include, for example, hypersonic flows or flows that may be generally called hyper-equilibrium state flows. Our formal scaling analysis also provides partial insight into the nature of entropy generation from an informatics perspective, where we specifically demonstrate the association of entropy generation in gases with uncertainty generated by the approximation error associated with density function expansions.

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