N. Abdulla, S. Hamarashid, Syamand A. Qadir, A. Faraj, S. Tobakari
The genus Consolida (DC.) Gray (Ranuculaceae) belongs to tribe Delphinieae. It comprises approximately 52 species, including the members of the genus Aconitella Spach. Iraq is one of the richest countries for the genus in South-West Asia. The genetic diversity was assessed through Sequence-related amplified polymorphism. To uncover genetic diversity and species characteristics in Consolida species, were studied through a molecular data. Seventy individuals related to five Consolida were collected in 5 provinces. A total of 75 (Number of total loci) (NTL) DNA bands were produced through polymerase chain reaction amplifications (PCR) amplification of five Consolida species. These bands were produced with the combinations of 5 selective primers. Present results showed that sequence-related amplified polymorphism have the potential to identify and decipher genetic affinity in Consolida species. Current results have implications in biodiversity and conservation programs. Besides this, present results could pave the way for selecting suitable ecotypes for forage and pasture purposes in Iraq.
{"title":"Gene flow and genetic diversity in Consolida (Ranunculaceae) using sequence related amplified polymorphism","authors":"N. Abdulla, S. Hamarashid, Syamand A. Qadir, A. Faraj, S. Tobakari","doi":"10.2298/gensr2203183a","DOIUrl":"https://doi.org/10.2298/gensr2203183a","url":null,"abstract":"The genus Consolida (DC.) Gray (Ranuculaceae) belongs to tribe Delphinieae. It comprises approximately 52 species, including the members of the genus Aconitella Spach. Iraq is one of the richest countries for the genus in South-West Asia. The genetic diversity was assessed through Sequence-related amplified polymorphism. To uncover genetic diversity and species characteristics in Consolida species, were studied through a molecular data. Seventy individuals related to five Consolida were collected in 5 provinces. A total of 75 (Number of total loci) (NTL) DNA bands were produced through polymerase chain reaction amplifications (PCR) amplification of five Consolida species. These bands were produced with the combinations of 5 selective primers. Present results showed that sequence-related amplified polymorphism have the potential to identify and decipher genetic affinity in Consolida species. Current results have implications in biodiversity and conservation programs. Besides this, present results could pave the way for selecting suitable ecotypes for forage and pasture purposes in Iraq.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68295856","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
F. Nasrollahi, S. Kazempour-Osaloo, Valyollah Mozaffarian, H. Zare-Maivan
The genus Onosma is a homogeneous taxon with high morphological variation and due to the similarities among the Onosma taxa, there are many problems in their identification. Hence, systematically and taxonomically, it is considered a difficult genus. In the present study, we included a large number of Onosma species throughout their distribution range. Using nuclear (ITS) and two plastids (rpl32-trnL(UAG) and trnH-psbA) markers, we analyzed the evolutionary history, divergence time and diversification patterns of Onosma across the tropical, subtropical and temperate regions. Divergence time estimates suggest the early radiation of Onosma s.l. happened at the Oligocene-Miocene boundary. BAMM analyses indicate that the best configuration included one significant shift in diversification rates within Onosma: on the branch leading to the clade comprised of species of confined to Iran.
{"title":"Temporal diversification in the genus Onosma (Boraginaceae) based on nuclear and plastid DNA sequences","authors":"F. Nasrollahi, S. Kazempour-Osaloo, Valyollah Mozaffarian, H. Zare-Maivan","doi":"10.2298/gensr2203135n","DOIUrl":"https://doi.org/10.2298/gensr2203135n","url":null,"abstract":"The genus Onosma is a homogeneous taxon with high morphological variation and due to the similarities among the Onosma taxa, there are many problems in their identification. Hence, systematically and taxonomically, it is considered a difficult genus. In the present study, we included a large number of Onosma species throughout their distribution range. Using nuclear (ITS) and two plastids (rpl32-trnL(UAG) and trnH-psbA) markers, we analyzed the evolutionary history, divergence time and diversification patterns of Onosma across the tropical, subtropical and temperate regions. Divergence time estimates suggest the early radiation of Onosma s.l. happened at the Oligocene-Miocene boundary. BAMM analyses indicate that the best configuration included one significant shift in diversification rates within Onosma: on the branch leading to the clade comprised of species of confined to Iran.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68295954","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
D. Terzić, R. Stanisavljević, T. Živanović, M. Tabaković, N. Trkulja, J. Marković, D. Poštić, R. Štrbanović
In order to have successful breeding, it is necessary to introduce new breeding material constantly and to use it through various types of hybridisation to increase the existing variability. Ten (10) lucerne varieties of different geographic origin were used in the study. Six varieties originated from the Republic of Serbia (Krusevacka 22, Krusevacka 28, NS-Banat ZMS II, NS-Mediana ZMS V, Zajecarska 83 and Cacanka 10), three varieties originated from the Republic of Croatia (Osjecka 66, Osjecka 88 and Osjecka 99) and one variety originated from the Republika Srpska (Banjalucanka). A total of 100 seeds per each of 10 (ten) lucerne varieties were placed in Petri dishes to germinate. The dishes were placed in the seed germination chamber with the altering temperature of 20 o? in the dark for 16 h and 30 o? in the light for 8 h for seven days. The first green leaflets of lucerne seedlings (cotyledons) were used for the DNA extraction. The first and the second axes from the principal coordinates analysis accounted for a total of 63.1% of genetic variation, contained in the original dataset. It is clearly observed that the genotype Zajecarska 83 is genetically most distant from other studied lucerne genotypes. These studies confirmed that the observed collection of lucerne varieties is variable enough for the successful breeding process. Using an appropriate breeding model it is possible to breed varieties for certain purposes.
{"title":"Using molecular markers in the identification of different genotypes of lucerne (Medicago sativa L.)","authors":"D. Terzić, R. Stanisavljević, T. Živanović, M. Tabaković, N. Trkulja, J. Marković, D. Poštić, R. Štrbanović","doi":"10.2298/gensr2203157t","DOIUrl":"https://doi.org/10.2298/gensr2203157t","url":null,"abstract":"In order to have successful breeding, it is necessary to introduce new breeding material constantly and to use it through various types of hybridisation to increase the existing variability. Ten (10) lucerne varieties of different geographic origin were used in the study. Six varieties originated from the Republic of Serbia (Krusevacka 22, Krusevacka 28, NS-Banat ZMS II, NS-Mediana ZMS V, Zajecarska 83 and Cacanka 10), three varieties originated from the Republic of Croatia (Osjecka 66, Osjecka 88 and Osjecka 99) and one variety originated from the Republika Srpska (Banjalucanka). A total of 100 seeds per each of 10 (ten) lucerne varieties were placed in Petri dishes to germinate. The dishes were placed in the seed germination chamber with the altering temperature of 20 o? in the dark for 16 h and 30 o? in the light for 8 h for seven days. The first green leaflets of lucerne seedlings (cotyledons) were used for the DNA extraction. The first and the second axes from the principal coordinates analysis accounted for a total of 63.1% of genetic variation, contained in the original dataset. It is clearly observed that the genotype Zajecarska 83 is genetically most distant from other studied lucerne genotypes. These studies confirmed that the observed collection of lucerne varieties is variable enough for the successful breeding process. Using an appropriate breeding model it is possible to breed varieties for certain purposes.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68296160","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
S. Bozorgmanesh, K. Fotouhifar, M. JAVAN-NIKKHAH, E. Seifollahi
The genetic diversity of Valsa sordida isolates from different geographical regions and hosts was investigated using MP-PCR markers. PCR amplifications were done using eight primers. Of them, only four primers [(ATC)7, (ACTG)4, (CGA)5, and (AAC)8] produced polymorphic bands. At least 88.5% polymorphism was revealed by four primers and the maximum polymorphism (97%) was generated by (ACTG)4 primer and three diagnosable groups (1, 2 and 3) were resolved in the resulting dendrogram constructed by the UPGMA algorithm. The results showed high polymorphism among the isolates and confirmed the merit and accuracy of the MP-PCR markers for studying the genetic variability of V. sordida isolates at the intra-species level. We have not found any correlations between observed genetic diversity and the geographical region or host plant of the isolates, unless in limited cases. The abundant formation of the sexual state of the fungus in the infected parts of trees, as well as possible asexual recombination during asexual reproduction, are suggested as influencing factors of high genetic variability among the individuals.
{"title":"Genetic diversity of plant pathogen valsa sordida using microsatellite markers","authors":"S. Bozorgmanesh, K. Fotouhifar, M. JAVAN-NIKKHAH, E. Seifollahi","doi":"10.2298/gensr2203979b","DOIUrl":"https://doi.org/10.2298/gensr2203979b","url":null,"abstract":"The genetic diversity of Valsa sordida isolates from different geographical regions and hosts was investigated using MP-PCR markers. PCR amplifications were done using eight primers. Of them, only four primers [(ATC)7, (ACTG)4, (CGA)5, and (AAC)8] produced polymorphic bands. At least 88.5% polymorphism was revealed by four primers and the maximum polymorphism (97%) was generated by (ACTG)4 primer and three diagnosable groups (1, 2 and 3) were resolved in the resulting dendrogram constructed by the UPGMA algorithm. The results showed high polymorphism among the isolates and confirmed the merit and accuracy of the MP-PCR markers for studying the genetic variability of V. sordida isolates at the intra-species level. We have not found any correlations between observed genetic diversity and the geographical region or host plant of the isolates, unless in limited cases. The abundant formation of the sexual state of the fungus in the infected parts of trees, as well as possible asexual recombination during asexual reproduction, are suggested as influencing factors of high genetic variability among the individuals.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68296991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
A large number of species of Cordia (Boraginaceae) are found across the tropical and subtropical parts of the planet. Cordia species are mentioned in popular medicine as being used to cure a variety of ailments affecting a variety of human organs. Population genetic structure, genetic diversity, and phenotypic variation are unknown for this species in Iran. For this reason, we collected morphological as well as molecular data on this plant species, which is significant in its own right. We employed 70 plants that were randomly picked from seven geographical communities spread throughout four provinces to conduct our research. These populations' genetic diversity variables were analyzed. The results of the structure and K-Means grouping analyses indicated the existence of five distinct gene pools in the nation, which were isolated from one another geographically. Genetic and geographical separation were shown to be correlated using the Mantel analysis. Among communities, AMOVA found considerable genetic differences, with within-population variance accounting for around 55% of the overall genetic variability. Upcoming breeding and conservation efforts for this vital medicinal plant in the nation may benefit from these findings.
{"title":"Genetic diversity of Cordia myxa L. assessed by ISSR markers","authors":"M. Nikkhah, S. Arbabian, A. Majd, F. Sharifnia","doi":"10.2298/gensr2201063n","DOIUrl":"https://doi.org/10.2298/gensr2201063n","url":null,"abstract":"A large number of species of Cordia (Boraginaceae) are found across the tropical and subtropical parts of the planet. Cordia species are mentioned in popular medicine as being used to cure a variety of ailments affecting a variety of human organs. Population genetic structure, genetic diversity, and phenotypic variation are unknown for this species in Iran. For this reason, we collected morphological as well as molecular data on this plant species, which is significant in its own right. We employed 70 plants that were randomly picked from seven geographical communities spread throughout four provinces to conduct our research. These populations' genetic diversity variables were analyzed. The results of the structure and K-Means grouping analyses indicated the existence of five distinct gene pools in the nation, which were isolated from one another geographically. Genetic and geographical separation were shown to be correlated using the Mantel analysis. Among communities, AMOVA found considerable genetic differences, with within-population variance accounting for around 55% of the overall genetic variability. Upcoming breeding and conservation efforts for this vital medicinal plant in the nation may benefit from these findings.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68291219","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
D. Grcak, S. Gosic-Dondo, M. Grcak, D. Ristic, D. Kondić, Djuradj Hajder, Ž. Popović, D. Knežević
Ostrinia nubilalis Hbn. is a corn pest that can do great damage to plants in some seasons. The aim of this paper is to study the resistance / susceptibility of hybrids to the attack of European corn borer and the effects of different doses of insecticides and time of application in protection against pests on maize plants, but primarily the influence of hybrids on attack intensity. The six maize hybrids of different maturation groups (ZP 427, ZP 434, ZP 555, ZP 600, ZP 606 and ZP 666) used for study effect of attack of Ostrinia nubillalis Hbn., on control variant T1 without application of insecticide and on variant treated with two insecticides Fobos EC (bifentrin - 200 ml ha-1) and combination of Match 050 EC and Nurelle D (lufenuron 50 g l-1 and hlorpirifos 500 g l-1 + cipermetrin 50 g l-1), 0.75 l ha-1) in two terms (in the first generation of insect flying T2 and T3 and in the second generation of insect flying T4 and T5) in three replication. The results showed the highest intensity of Ostrinia nubilalis Hbn. attack and degree of damages on control variant and significant differences between treatments for investigated parameters. Observing all hybrids and treatments, there was no statistical significance between the six examined maize hybrids of different maturity groups. In the control variant, the greatest attack (damage) was in plants, namely in the hybrid ZP 666 (94.28%) and ZP 606 (93.90%) and among the variants of applied insecticides, the greatest damage was found in the treatment T5 with the applied combination of Match + Nurelle in hybrid ZP 555 and was 92.02%. On treatment T1-control variant without insecticides, the smallest attack with Ostrinia nubilalis Hbn. was found in the hybrid ZP 434 (from 88.76%) and among the variants of applied insecticides, the smallest attack was found on variant T2 with applied Phobos in the first generation of insect in hybrid ZP 434 and amounted to 77.12%. The attack of Ostrinia nubilalis Hbn. and variation of average mass of maize cob varied in dependence of maze of hybrids and variant of insecticides application.
牛蒡子;是一种玉米害虫，在某些季节会对植物造成很大的损害。本研究旨在研究杂交玉米对欧洲玉米螟的抗性/敏感性，以及不同剂量和施用时间对玉米植株的防虫效果，但主要研究杂交玉米对侵染强度的影响。选用zp427、zp434、zp555、zp600、zp606和zp666 6个不同成熟度组的玉米杂交种，研究了玉米玉米螟的侵染效果。对照变异T1不施用杀虫剂，对照变异T1用两种杀虫剂Fobos EC(联苯双酚酯- 200 ml ha-1)和Match 050 EC与Nurelle D(氟虫腈50 g -1和吡虫啉500 g -1 +吡虫胺50 g -1)、0.75 l ha-1联合处理(第一代飞虫T2和T3和第二代飞虫T4和T5)，分两期进行3次重复。结果表明，玉米螟的强度最高。研究参数的攻击和损害程度在对照上存在差异，处理间差异显著。观察所有杂交种和处理，不同成熟度组的6个玉米杂交种间差异无统计学意义。在对照变异中，以zp666和zp606对植株的侵害(伤害)最大，分别为94.28%和93.90%;在施用杀虫剂的变异中，以zp555配用Match + Nurelle组合的处理T5的危害最大，为92.02%。在不使用杀虫剂的t1 -对照变异处理中，玉米螟的攻击最小。杂交品种zp434第一代虫施磷磷对变异T2的攻击最小，占77.12%。鸵鸟的攻击。玉米穗轴平均质量的变化与杂交迷宫和施用杀虫剂的不同有关。
{"title":"Influence of maize hybrids and applayed insecticides on Ostrinia nubilalis Hbn. attack","authors":"D. Grcak, S. Gosic-Dondo, M. Grcak, D. Ristic, D. Kondić, Djuradj Hajder, Ž. Popović, D. Knežević","doi":"10.2298/gensr2201289g","DOIUrl":"https://doi.org/10.2298/gensr2201289g","url":null,"abstract":"Ostrinia nubilalis Hbn. is a corn pest that can do great damage to plants in some seasons. The aim of this paper is to study the resistance / susceptibility of hybrids to the attack of European corn borer and the effects of different doses of insecticides and time of application in protection against pests on maize plants, but primarily the influence of hybrids on attack intensity. The six maize hybrids of different maturation groups (ZP 427, ZP 434, ZP 555, ZP 600, ZP 606 and ZP 666) used for study effect of attack of Ostrinia nubillalis Hbn., on control variant T1 without application of insecticide and on variant treated with two insecticides Fobos EC (bifentrin - 200 ml ha-1) and combination of Match 050 EC and Nurelle D (lufenuron 50 g l-1 and hlorpirifos 500 g l-1 + cipermetrin 50 g l-1), 0.75 l ha-1) in two terms (in the first generation of insect flying T2 and T3 and in the second generation of insect flying T4 and T5) in three replication. The results showed the highest intensity of Ostrinia nubilalis Hbn. attack and degree of damages on control variant and significant differences between treatments for investigated parameters. Observing all hybrids and treatments, there was no statistical significance between the six examined maize hybrids of different maturity groups. In the control variant, the greatest attack (damage) was in plants, namely in the hybrid ZP 666 (94.28%) and ZP 606 (93.90%) and among the variants of applied insecticides, the greatest damage was found in the treatment T5 with the applied combination of Match + Nurelle in hybrid ZP 555 and was 92.02%. On treatment T1-control variant without insecticides, the smallest attack with Ostrinia nubilalis Hbn. was found in the hybrid ZP 434 (from 88.76%) and among the variants of applied insecticides, the smallest attack was found on variant T2 with applied Phobos in the first generation of insect in hybrid ZP 434 and amounted to 77.12%. The attack of Ostrinia nubilalis Hbn. and variation of average mass of maize cob varied in dependence of maze of hybrids and variant of insecticides application.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68292385","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
B. Dobric, D. Radivojevic, J. Jecmenica, P. Fanis, V. Neocleous, L. Phylactou, M. Djurisic
Hearing impairment is the most common sensorineural disorder in humans and many genes have been identified as causable. Despite genetic heterogeneity, a single locus, DFNB1, that contains genes GJB2 and GJB6, accounts for up to 50% of all cases. Aim of this study was to determine prevalence of identified variants in DFNB1 locus in patients from Serbia with autosomal recessive non-syndromic hearing loss (ARNSHL). In this study, PCR-ARMS and direct sequencing of the GJB2 and GJB6 genes was carried out in 54 probands and relatives from Serbia with nonsyndromic hearing loss (NSHL). In 31 patients a series of variants have been identified in the GJB2 gene. Fully characterized genotype with bi-allelic mutations was observed in 40.74% of the probands (22/54). The remaining probands were either identified in the heterozygote form (9/54) or were identified with no (23/54) causing variants for the tested genes. A total of seven different mutations were found with following allele frequencies: c.35delG (31.48%), c.71G>A (6.48%), c.313_326del (5.56%), c.101T>C (1.85%), c.380G>A (1.85%), c.79G>A (0.92%) and c.269T>C (0.92%). The molecular basis of NSHL in patients from Serbia was analyzed for the first time in this study. The results have important implication to the development of the genetic diagnosis of deafness, genetic counseling, and early treatment in our country. Also, our findings contribute to the knowledge of geographic distribution of DFNB1 mutations.
{"title":"Prevalence of variants in DFNB1 locus in Serbian patients with autosomal recessive non-syndromic hearing loss","authors":"B. Dobric, D. Radivojevic, J. Jecmenica, P. Fanis, V. Neocleous, L. Phylactou, M. Djurisic","doi":"10.2298/gensr2201447d","DOIUrl":"https://doi.org/10.2298/gensr2201447d","url":null,"abstract":"Hearing impairment is the most common sensorineural disorder in humans and many genes have been identified as causable. Despite genetic heterogeneity, a single locus, DFNB1, that contains genes GJB2 and GJB6, accounts for up to 50% of all cases. Aim of this study was to determine prevalence of identified variants in DFNB1 locus in patients from Serbia with autosomal recessive non-syndromic hearing loss (ARNSHL). In this study, PCR-ARMS and direct sequencing of the GJB2 and GJB6 genes was carried out in 54 probands and relatives from Serbia with nonsyndromic hearing loss (NSHL). In 31 patients a series of variants have been identified in the GJB2 gene. Fully characterized genotype with bi-allelic mutations was observed in 40.74% of the probands (22/54). The remaining probands were either identified in the heterozygote form (9/54) or were identified with no (23/54) causing variants for the tested genes. A total of seven different mutations were found with following allele frequencies: c.35delG (31.48%), c.71G>A (6.48%), c.313_326del (5.56%), c.101T>C (1.85%), c.380G>A (1.85%), c.79G>A (0.92%) and c.269T>C (0.92%). The molecular basis of NSHL in patients from Serbia was analyzed for the first time in this study. The results have important implication to the development of the genetic diagnosis of deafness, genetic counseling, and early treatment in our country. Also, our findings contribute to the knowledge of geographic distribution of DFNB1 mutations.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68293114","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Terubuk fish (Tenualosa spp.) commonly found in Bengkalis Strait is an important fishery commodity with a high economic value. However, the exploitation of the fish especially during spawning and hatching time due to the demand of the fish for consumption affects the decrease in numbers of the fish in Bengkalis Strait every year. Therefore, research on species identification and molecular analysis of the terubuk fish have to be investigated due to no genetic information can be used to make regulations and policies related to fish conservation. This research aimed to identify and examine the genetic polymorphism of terubuk fish in Bengkalis Strait using the partial COI mitochondrial gene. The method applied in this research was a PCR with primer FishF2 and FishR2. Genetic identification of the terubuk fish was analysed using nucleotide BLAST and Identification Engine through BOLD and genetic variation was evaluated using the DnaSP program. Genetic distance was examined using Kimura 2 parameter (K2P) model. The phylogenetic tree was constructed using Bayesian Inference through the BEAST program. The result revealed that all samples of terubuk fish were identified as Tenualosa macrura. The terubuk samples investigated in this study have 4 haplotypes with 6 variable sites dan 1 parsimony site. The haplotype diversity and nucleotide diversity were 0.714 and 0.00353 respectively with a genetic distance of 0-0.9% (mean= 0.4%). This finding is first reported and the genetic information gained in this study is expected to be implemented for terubuk fish conservation, especially in Bengkalis Strait.
{"title":"Species identification and molecular analysis of terubuk fish from Bengkalis strait (Riau, Indonesia) using COI mitochondrial gene as a barcoding marker","authors":"Tuty Arisuryanti, Syafrizal Ulum, L. Hakim","doi":"10.2298/gensr2202575a","DOIUrl":"https://doi.org/10.2298/gensr2202575a","url":null,"abstract":"Terubuk fish (Tenualosa spp.) commonly found in Bengkalis Strait is an important fishery commodity with a high economic value. However, the exploitation of the fish especially during spawning and hatching time due to the demand of the fish for consumption affects the decrease in numbers of the fish in Bengkalis Strait every year. Therefore, research on species identification and molecular analysis of the terubuk fish have to be investigated due to no genetic information can be used to make regulations and policies related to fish conservation. This research aimed to identify and examine the genetic polymorphism of terubuk fish in Bengkalis Strait using the partial COI mitochondrial gene. The method applied in this research was a PCR with primer FishF2 and FishR2. Genetic identification of the terubuk fish was analysed using nucleotide BLAST and Identification Engine through BOLD and genetic variation was evaluated using the DnaSP program. Genetic distance was examined using Kimura 2 parameter (K2P) model. The phylogenetic tree was constructed using Bayesian Inference through the BEAST program. The result revealed that all samples of terubuk fish were identified as Tenualosa macrura. The terubuk samples investigated in this study have 4 haplotypes with 6 variable sites dan 1 parsimony site. The haplotype diversity and nucleotide diversity were 0.714 and 0.00353 respectively with a genetic distance of 0-0.9% (mean= 0.4%). This finding is first reported and the genetic information gained in this study is expected to be implemented for terubuk fish conservation, especially in Bengkalis Strait.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68293343","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Twenty salt-tolerant breeding lines of T. Aman rice were studied under field conditions at the experimental farm of the Department of Genetics and Plant Breeding, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Bangladesh. The experiment was conducted following Randomized Complete Block Design (RCBD) with three replications to estimate the genetic variations in yield and yield-related traits, and their interrelationship and to assess the direct and indirect effects of different yield-related traits on grain yield for the selection of high-yielding T. Aman rice. Twelve characters viz., days to flowering, days to maturity, plant height (cm), tillers per hill, panicles per hill, flag leaf length (cm), panicle length (cm), panicle weight (g), filled grains per panicle, spikelet fertility percentage, 100-grain weight (g) and grain yield per m2 (kg) were studied. The genotypes differed significantly for all the traits studied indicating the wide range of variations existed across the genotypes. The analysis of variance of all characters studied was highly significant that revealed a wide range of variability among the newly developed 20 salt-tolerant genotypes of T. Aman rice. The genotypes BU1, BU4, BU6, BU7, and BU14 had high grain yields and could be directly selected as high-yielding varieties. Based on all genetic parameters, all the traits could significantly improve the grain yield of salt-tolerant lines of T. Aman rice. The correlation coefficient revealed that the genotype selected based on days to flowering, days to maturity, plant height (cm), panicles per hill, flag leaf length (cm), panicle weight (g), filled grains per panicle, and spikelet fertility (%) and 100-grain weight directly would significantly contribute to grain yield of 20 salt-tolerant genotypes of T. Aman rice. However, considering the genotypic correlations and path coefficients, direct selection on the basis of panicles per hill, panicle weight, plant height, flag leaf length, filled grains per panicle, spikelet fertility (%), days to flowering, and days to maturity would significantly improve the grain yield of salt-tolerant T. Aman rice genotypes.
{"title":"Genetic variability, heritability and interrelationship in salt-tolerant lines of T. Aman rice","authors":"Ummy Kulsum, Umakanta Sarker, M. Rasul","doi":"10.2298/gensr2202761k","DOIUrl":"https://doi.org/10.2298/gensr2202761k","url":null,"abstract":"Twenty salt-tolerant breeding lines of T. Aman rice were studied under field conditions at the experimental farm of the Department of Genetics and Plant Breeding, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Bangladesh. The experiment was conducted following Randomized Complete Block Design (RCBD) with three replications to estimate the genetic variations in yield and yield-related traits, and their interrelationship and to assess the direct and indirect effects of different yield-related traits on grain yield for the selection of high-yielding T. Aman rice. Twelve characters viz., days to flowering, days to maturity, plant height (cm), tillers per hill, panicles per hill, flag leaf length (cm), panicle length (cm), panicle weight (g), filled grains per panicle, spikelet fertility percentage, 100-grain weight (g) and grain yield per m2 (kg) were studied. The genotypes differed significantly for all the traits studied indicating the wide range of variations existed across the genotypes. The analysis of variance of all characters studied was highly significant that revealed a wide range of variability among the newly developed 20 salt-tolerant genotypes of T. Aman rice. The genotypes BU1, BU4, BU6, BU7, and BU14 had high grain yields and could be directly selected as high-yielding varieties. Based on all genetic parameters, all the traits could significantly improve the grain yield of salt-tolerant lines of T. Aman rice. The correlation coefficient revealed that the genotype selected based on days to flowering, days to maturity, plant height (cm), panicles per hill, flag leaf length (cm), panicle weight (g), filled grains per panicle, and spikelet fertility (%) and 100-grain weight directly would significantly contribute to grain yield of 20 salt-tolerant genotypes of T. Aman rice. However, considering the genotypic correlations and path coefficients, direct selection on the basis of panicles per hill, panicle weight, plant height, flag leaf length, filled grains per panicle, spikelet fertility (%), days to flowering, and days to maturity would significantly improve the grain yield of salt-tolerant T. Aman rice genotypes.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68294582","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
M. Simonović, Z. Lepšanović, B. Rakonjac, Srdjan Lazić
Acinetobacter baumannii is one of the most important nosocomial pathogen worldwide. This study aimed to investigate the virulence potential and genomic relatedness of A. baumannii strains isolated from patients hospitalized in the Military Medical Academy (MMA) by detecting OXA-type carbapenemases genes, biofilm-associated genes, and by RAPD analysis. PCR was used to detect the blaoxa genes, ISAba-1 genetic element, and biofilm-associated genes. The genomic relatedness was determined by RAPD analysis using four different primers (AP2, DAF4. M13, and DECA). blaoxa-51-like, blaoxa-23-like, blaoxa-24-like, and blaoxa-58-like were present in 100%, 34.0%, 62.4%, and 3.1% of isolates, respectively. All isolates had the ISAba1 sequence in their genome, in 35.1% of isolates it was associated with the blaoxa-51-like, and in 97.0% with the blaoxa-23-like gene. Biofilm-associated genes bap, ompA, epsA, csuA/BABCDE, and pgaABCD were detected in 93.8%, 95.8%, 88.1%, 98.4%, and 98.9% isolates, respectively. RAPD analysis showed a high degree of genome similarity and clonal dispersion of the isolates. Detection of blaoxa genes, especially biofilm-associated genes, in a high percentage of A. baumannii isolates indicated their great pathogenic potential. RAPD analysis revealed a high level of genomic similarity and clonal dispersion of the majority of isolates through MMA. Further, a continuous introduction of individual strains with different profiles contributes to the genetic diversity of A. baumannii isolates. These results can be useful for further management and tracking nosocomial outbreaks.
{"title":"Detection of carbapenem-resistance and biofilm formation genes, and genetic relatedness of Acinetobacter baumannii isolates","authors":"M. Simonović, Z. Lepšanović, B. Rakonjac, Srdjan Lazić","doi":"10.2298/gensr2203069s","DOIUrl":"https://doi.org/10.2298/gensr2203069s","url":null,"abstract":"Acinetobacter baumannii is one of the most important nosocomial pathogen worldwide. This study aimed to investigate the virulence potential and genomic relatedness of A. baumannii strains isolated from patients hospitalized in the Military Medical Academy (MMA) by detecting OXA-type carbapenemases genes, biofilm-associated genes, and by RAPD analysis. PCR was used to detect the blaoxa genes, ISAba-1 genetic element, and biofilm-associated genes. The genomic relatedness was determined by RAPD analysis using four different primers (AP2, DAF4. M13, and DECA). blaoxa-51-like, blaoxa-23-like, blaoxa-24-like, and blaoxa-58-like were present in 100%, 34.0%, 62.4%, and 3.1% of isolates, respectively. All isolates had the ISAba1 sequence in their genome, in 35.1% of isolates it was associated with the blaoxa-51-like, and in 97.0% with the blaoxa-23-like gene. Biofilm-associated genes bap, ompA, epsA, csuA/BABCDE, and pgaABCD were detected in 93.8%, 95.8%, 88.1%, 98.4%, and 98.9% isolates, respectively. RAPD analysis showed a high degree of genome similarity and clonal dispersion of the isolates. Detection of blaoxa genes, especially biofilm-associated genes, in a high percentage of A. baumannii isolates indicated their great pathogenic potential. RAPD analysis revealed a high level of genomic similarity and clonal dispersion of the majority of isolates through MMA. Further, a continuous introduction of individual strains with different profiles contributes to the genetic diversity of A. baumannii isolates. These results can be useful for further management and tracking nosocomial outbreaks.","PeriodicalId":50423,"journal":{"name":"Genetika-Belgrade","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"68295299","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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