scholarly journals Possible identification of CENP-C in fish and the presence of the CENP-C motif in M18BP1 of vertebrates.

F1000Research ◽  
2015 ◽  
Vol 4 ◽  
pp. 474 ◽  
Author(s):  
Leos Kral
Keyword(s):  
Plant Species ◽  
Fish Species ◽  
Protein Sequences ◽  
Base Component ◽  
Centromeric Protein ◽  
Partial Homology ◽  
Fish Proteins

The centromeric protein CENP-C is a base component of the kinetochore. This protein, along with CENP-A has been shown to adaptively evolve in a number of animal and plant species. In order to determine if CENP-C also evolves in fish species, I attempted to retrieve fish CENP-C sequences from GenBank. No Teleostei CENP-C sequences were found either by name or by BLASTP searches with the vertebrate CENP-C motif sequence. A number of putative Teleostei protein sequences were identified in GenBank that have homology to the C-terminal cupin domain of vertebrate CENP-C. These proteins only have partial homology to the CENP-C motif, but evidence is presented that makes it likely that these fish proteins are orthologs of CENP-C. Interestingly, it was also discovered that the CENP-C motif sequence is also mostly present in M18BP1 proteins of fish and some other vertebrates but not in mammals. This finding may have implications for CENP-C and M18BP1 assembly in centromeric regions of different vertebrate taxa.

scholarly journals Possible identification of CENP-C in fish and the presence of the CENP-C motif in M18BP1 of vertebrates.

F1000Research ◽  
2016 ◽  
Vol 4 ◽  
pp. 474 ◽  
Author(s):  
Leos Kral
Keyword(s):  
Plant Species ◽  
Fish Species ◽  
Protein Sequences ◽  
Base Component ◽  
Centromeric Protein ◽  
Partial Homology ◽  
Fish Proteins

The centromeric protein CENP-C is a base component of the kinetochore. This protein, along with CENP-A has been shown to adaptively evolve in a number of animal and plant species. In order to determine if CENP-C also evolves in fish species, I attempted to retrieve fish CENP-C sequences from GenBank. No Teleostei CENP-C sequences were found either by name or by BLASTP searches with the vertebrate CENP-C motif sequence. A number of putative Teleostei protein sequences were identified in GenBank that have homology to the C-terminal cupin domain of vertebrate CENP-C. These proteins only have partial homology to the CENP-C motif, but evidence is presented that makes it likely that these fish proteins are orthologs of CENP-C. Interestingly, it was also discovered that the CENP-C motif sequence is also mostly present in M18BP1 proteins of fish and some other vertebrates but not in mammals. This finding may have implications for CENP-C and M18BP1 assembly in centromeric regions of different vertebrate taxa.

scholarly journals Evidence for herbaceous seed dispersal by small-bodied fishes in a Pantanal seasonal wetland

2014 ◽  
Vol 74 (3) ◽  
pp. 588-596 ◽  
Author(s):  
RML Silveira ◽  
B Weiss
Keyword(s):  
Seed Dispersal ◽  
Digestive Tract ◽  
Plant Species ◽  
Fish Species ◽  
Seed Bank ◽  
Aluminum Foil ◽  
Soil Mass ◽  
Fecal Material ◽  
Sampling Area ◽  
Intestinal Contents

We analysed the germination of seeds after their passage through the digestive tract of small floodplain fishes. Samples were collected in five open flooded fields of the northern Pantanal in March 2011. All fishes were sacrificed and their intestinal contents were removed. The fecal material was weighed and stored at 4°C in a GF/C filter wrapped in aluminum foil. The material was then transferred to a receptacle containing sterilised soil from the sampling area. The fecal samples were kept in a germination chamber for 68 days and then transferred to a greenhouse for another 67 days. We collected a total of 45 fish species and 1014 individuals which produced a total amount of 32g of fresh fecal mass and 11 seedlings. We were able to identify six seedlings: two Banara arguta, two Steinchisma laxa, one Hymenachne amplexicaulis and one Luziola sp.. The fish species that produced samples with seedlings were Astyanax assuncionensis, Metynnis mola, Plesiolebias glaucopterus, Acestrorhyncus pantaneiro and Anadoras wendelli. With the exception of B. arguta the remaining plant species and all fish species were not known to be associated with the seed dispersal process of these plants. We found a ratio of 0.435 seedlings.g–1 of fresh fecal material, which is 100 times higher than the amount of seedlings encountered in fresh soil mass (92,974 grams) in seed bank studies conducted in the same study area. In particular, Astyanax assuncionensis and Metynnis mola were among the most frequent and most abundant fish taxa in the area. Together with the high seed concentration in the fish fecal material, this evidence allows us to conclude that such fish species may play an important role in seed dispersal in the herbaceous plants of the Pantanal.

scholarly journals Myofibrillars and Sarcoplasmic Proteins Separated The Effect of Different Preservation and Cooking Methods on Functional Characteristics of From Common Carp and Silver Carp Prof.

2021 ◽  
Vol 910 (1) ◽  
pp. 012105
Author(s):  
Khadeeja Sadiq ◽  
Jaffer Al-Hussainy ◽  
Hala Yhya Essa Al-Robeay
Keyword(s):  
Common Carp ◽  
Fish Species ◽  
Silver Carp ◽  
Cooking Methods ◽  
Functional Characteristics ◽  
Sarcoplasmic Proteins ◽  
Preservation Methods ◽  
Foam Properties ◽  
The Stability ◽  
Fish Proteins

Abstract The current study dealt with the use of methods of preserving (freezing and salting with drying), cooking methods (grilling and cooking in broth and frying) and studying their effect on functional characteristics (solubility, amount of water and oil absorbed, viscosity, emulsification, foaming, gel formation) of myofibrillars and sarcoplasmic proteins separated from carp meat, common and silver carp diagnosed with electrophoresis technique, the study was conducted during the period (10/2018-1/2020). The results were as follows: 1. Dried fibrous proteins and dried sarcoplasm proteins separated from fish meat have given a good functional properties compared to commercial cow's albumin. 2. It was found that the percentage of solubility and gelatinization of commercial cow's albumin protein was higher than in the myofibrillars and sarcoplasmic proteins separated from the two types of fish, whereas the amount of water absorbed by the commercial cow's albumin protein was less than of myofibrillars and sarcoplasmic proteins, while the amount of absorbed oil, viscosity, and emulsion composition. The commercial cow's albumin was comparable to the myofibrillars and sarcoplasmic proteins, and when comparing the foam properties of the myofibrillars and sarcoplasmic proteins of common carp and silver carp with the commercial cow's albumin at a concentration of 1% and at the normal pH=7, it was found that the foam size and persistence of sarcooplasmic proteins were close to the size and persistence of the foam for the commercial protein at the normal pH, while the volume and stability of the foam for myofibrillars proteins were slightly lower than in cow's albumin. 3. It was observed that the solubility values in the myofibrillars proteins and the sarcoplasmic proteins of the samples were close to each other when using preservation methods while the solubility of the myofibrillars proteins was lower than the solubility of the sarcoplasm proteins of the cooked samples. It was found that the amount of oil absorbed by the myofibrillars proteins was higher than the sarcoplasmic proteins, but that its viscosity and its ability to bind water and its ability to form gel were lower than it, and the capacity of emulsifiers of protein myofibrillars and their stability was higher than the capacity and the stability of emulsions of sarcoplasm proteins, as for the type of fish and the type of protein stability of emulsions, it was noted that there was a slight difference in the capacity of emulsions and the stability of emulsions for myofibrillars proteins as well as for sarcoplasm proteins. The emulsification values did not seem different between the two types of fish. 4. It was found that freezing contributed to reducing solubility and the amount of water absorbed while it had a role in increasing the amount of oil absorbed to fish proteins more than salting and drying. The freezing, as well as salting and drying were reduced the viscosity of proteins a little bit, also freezing reduced stability of emulsionsfor two type of fish proteins,but salting and drying was rised it, and the degree of influence of the measured foam property in myofibrillars and sarcoplasmic proteins of the fish species by means of preservation and cooking different methods was very small because the values were closely related, and we did not find a specific pattern that we could apply in terms of challenging degree of difference, freezing and salting with drying, grilling and frying and cooking in the broth sometimes susceptibility raises values formation of foam and other reduce it. 5. The solubility of proteins that measured on fish which cooked in broth was more than the solubility of grilled and fried samples. It was observed that the solubility values in myofibrillars proteins and sarcoplasm proteins for the cooked samples were close to each other, and the amount of water and absorbed oil, foam properties and viscosity of the measured proteins in cooked fish were not affected by the cooked methods whose used because the closely related of values. 6. Generally the results showed that the solubility and viscosity values in the samples of common carp were lower than in the silver carp which preserved and cooked by different ways, but the ability of common carp to bind the oil was higher than that of silver carp when using conservation methods while the values were close at the use of cooking methods, and we noted that there were no noticeable differences between myofibrillars proteins and sarcoplasmic proteins for the two fish species in their ability to bind water and their ability to form gel. It was also noted that there was a slight difference in the capacity of emulsions and their stability to myofibrillars proteins as well as to proteins sarcoplasm between the two types of fish. 7. The fish type, preservation methods, cooking methods, and di-interference had a significant effect at the probability level (P ≤ 0.05) on the percentage of solubility and the amount of water and oil absorbed by the myofibrillars and sarcoplasmic proteins separated from the meat of these fish, but did not significantly impact the viscosity of the protein.

Liquid Chromatographic Identification of Common Fish Species

1987 ◽  
Vol 70 (4) ◽  
pp. 618-625 ◽  
Author(s):  
Magdi A Osman ◽  
Samy H Ashoor ◽  
Paul C Marsh
Keyword(s):  
Fish Species ◽  
Water Soluble ◽  
Simple Liquid ◽  
Fresh Fish ◽  
Qualitative And Quantitative ◽  
Fish Species Identification ◽  
Total Analysis ◽  
Species Specific ◽  
Fish Proteins ◽  
Liquid Chromatographic

Abstract Water-soluble sarcoplasmic proteins in aqueous blends of each of 31 fresh fish species were separated and quantitated by a simple liquid chromatographic (LC) method. The method revealed major qualitative and quantitative differences which were used for reliable identification of all species. Freezing for 6 months had no apparent effect on water-soluble fish proteins and did not change species-specific chromatograms. Cooking, however, caused significant changes which resulted in chromatograms different from those of fresh or frozen samples. Fish species identification by the LC method is rapid (total analysis time is about 1 h) and reliable and does not require special skills. It is applicable to fresh and frozen whole, sliced, filleted, and minced fish.

scholarly journals Pathogen-driven coevolution across CBP60 plant immune regulator subfamilies confers resilience on the regulator module

2020 ◽  
Author(s):  
Qi Zheng ◽  
Kristina Majsec ◽  
Fumiaki Katagiri
Keyword(s):  
Phylogenetic Analysis ◽  
Euclidean Space ◽  
Plant Species ◽  
Protein Evolution ◽  
Selection Pressure ◽  
Protein Sequences ◽  
Land Plant ◽  
Strong Selection ◽  
Pathogen Effectors ◽  
Evolution Analysis

ABSTRACTAmong eight Arabidopsis CaM-Binding Protein (CBP) 60 family members, AtCBP60g and AtSARD1 are partially functionally redundant, major positive immune regulators while AtCBP60a is a negative immune regulator. Phylogenetic analysis of CBP60 protein sequences of 247 diverse land plant species indicated that the immune regulator CBP60a, CBP60g, and SARD1 subfamilies diversified at divergence of Angiosperms and have been evolving very fast, suggesting strong selection pressure from pathogen effectors. We developed the Protein Evolution Analysis in Euclidean Space (PEAES) approach to investigate effects of this potential selection. We detected significant coevolutionary interactions across the immune regulator subfamilies specific to different Core Eudicot lineages, which are consistent with hypothetical coevolutionary mechanisms that protect the positive immune regulator function from being targeted by pathogen effectors. Thus, fast coevolution across the subfamilies with overlapping or opposing functions appears crucial to maintain resilience of the CBP60 immune regulator module against fast-evolving pathogen effectors.

scholarly journals Changes of Land Use and Land Cover with the Diversity of Fishes, Aquatic Plants, and Bird’s Species at Wetland Ecosystem

2021 ◽  
Vol 2021 ◽  
pp. 1-15
Author(s):  
Mohammad Zahangeer Alam ◽  
Md. Abdullahil Baki Bhuiyan ◽  
Hasan Muhammad Abdullah ◽  
Suma Rani Ghosh ◽  
Mohammad Maksudul Hassan ◽  
...  
Keyword(s):  
Land Use ◽  
Land Cover ◽  
Plant Species ◽  
Fish Species ◽  
Aquatic Plants ◽  
Aquatic Plant ◽  
Bird Species ◽  
Wetland Biodiversity ◽  
Wallago Attu ◽  
The Government

Bangladesh is rich in wetland biodiversity with aquatic plants, fishes, and birds. Mohanganj Upazila is known as the capital of lower Bangladesh. The present study focuses on the changes of land use and land cover (LULC) with a diversity of species that are being least concerned (LC), vulnerable (VU), and endangered (EN). Over the last two decades, the wetland species of Mohanganj were gradually declined. Our results showed that 19 fish, 4 aquatic plants, and 7 bird species were LC in 2015. Among the fish and aquatic plant species, 6 fish species (Wallago attu, Ompok pabda, Channa punctate, Chitala chitala, Salmostoma phulo, and Corica soborna) and 2 aquatic plant species (Nymphaea nouchali and Nymphaea lotus) were VU during the dry and rainy season of 2017 and 2019, respectively. In the dry season of 2019, 4 fish species (W. attu, O. pabda, C. punctate, and Ch. chitala), 2 aquatic plant species (N. nouchali and N. lotus), and 7 bird species (Anas platyrhynchos, Ardeola grayii, Gyps bengalensis, Alcedo atthis, Phalacrocorax fuscicollis, Porphyrio porphyria, and Larus ridibundus) were EN. Among the species, W. attu, N. nouchaii, G. bengalensis, P. porphyria, and L. ridibundus were extremely endangered categories. Changes in LULC, the establishment of settlements for the increasing population, indiscriminate use of pesticides, environmental pollutions, and climate change are the potential reasons for declining trends of wetland biodiversity. Stern actions on land use policy, expansion of organic agriculture, bioremediation of industrial effluents, and adoption of sustainable environmental policies should be taken by the Government of Bangladesh for immediate conservation of wetland biodiversity.

scholarly journals Reassessment of Annamocarya sinesis (Carya sinensis) Taxonomy through Concatenation and Coalescence Phylogenetic Analysis

Plants ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 52
Author(s):  
Jie Luo ◽  
Junhao Chen ◽  
Wenlei Guo ◽  
Zhengfu Yang ◽  
Kean-Jin Lim ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Plant Species ◽  
Protein Sequence ◽  
Morphological Characteristics ◽  
Protein Sequences ◽  
Taxonomic Status ◽  
Chloroplast Genes ◽  
Unique Protein ◽  
Chloroplast Genomes ◽  
Analytical Approaches

Due to its peculiar morphological characteristics, there is dispute as to whether the genus of Annamocarya sinensis, a species of Juglandaceae, is Annamocarya or Carya. Most morphologists believe it should be distinguished from the Carya genus while genomicists suggest that A. sinensis belongs to the Carya genus. To explore the taxonomic status of A. sinensis using chloroplast genes, we collected chloroplast genomes of 16 plant species and assembled chloroplast genomes of 10 unpublished Carya species. We analyzed all 26 species’ chloroplast genomes through two analytical approaches (concatenation and coalescence), using the entire and unique chloroplast coding sequence (CDS) and entire and protein sequences. Our results indicate that the analysis of the CDS and protein sequences or unique CDS and unique protein sequence of chloroplast genomes shows that A. sinensis indeed belongs to the Carya genus. In addition, our analysis shows that, compared to single chloroplast genes, the phylogeny trees constructed using numerous genes showed higher consistency. Moreover, the phylogenetic analysis calculated with the coalescence method and unique gene sequences was more robust than that done with the concatenation method, particularly for analyzing phylogenetically controversial species. Through the analysis, our results concluded that A. sinensis should be called C. sinensis.

scholarly journals High Throughput Identification of Antihypertensive Peptides from Fish Proteome Datasets

Marine Drugs ◽  
2018 ◽  
Vol 16 (10) ◽  
pp. 365 ◽  
Author(s):  
Yunhai Yi ◽  
Yunyun Lv ◽  
Lijun Zhang ◽  
Jian Yang ◽  
Qiong Shi
Keyword(s):  
High Throughput ◽  
Fish Species ◽  
Food Additives ◽  
Antihypertensive Activity ◽  
Natural Food ◽  
Main Role ◽  
Small Peptides ◽  
Fish Proteins ◽  
Relationship Of ◽  
Antihypertensive Peptides

Antihypertensive peptides (AHTPs) are a group of small peptides with the main role to block key enzymes or receptors in the angiotensin genesis pathway. A great number of AHTPs have been isolated or digested from natural food resources; however, comprehensive studies on comparisons of AHTPs in various species from the perspective of big data are rare. Here, we established a simplified local AHTP database, and performed in situ mapping for high throughput identification of AHTPs with high antihypertensive activity from high-quality whole proteome datasets of 18 fish species. In the 35 identified AHTPs with reported high activity, we observed that Gly-Leu-Pro, Leu-Pro-Gly, and Val-Ser-Val are the major components of fish proteins, and AHTP hit numbers in various species demonstrated a similar distributing pattern. Interestingly, Atlantic salmon (Salmo salar) is in possession of far more abundant AHTPs compared with other fish species. In addition, collagen subunit protein is the largest group with more matching AHTPs. Further exploration of two collagen subunits (col4a5 and col8a1) in more fish species suggested that the hit pattern of these conserved proteins among teleost is almost the same, and their phylogeny is consistent with the evolution of these fish species. In summary, our present study provides basic information for the relationship of AHTPs with fish proteins, which sheds light on rapid discovery of marine drugs or food additives from fish protein hydrolysates to alleviate hypertension.

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