Pub Date : 2024-02-06DOI: 10.1007/s13237-023-00464-0
Dilipraj Sathyamurthy, Jayakanthan Mannu, Senthil Natesan, Bharathi Nathan, Saranya Nallusamy, M. B. Narayanan, Kavithamani Duraisamy
{"title":"Comparative chloroplast genome analysis of six millet species along with related Poaceae family members","authors":"Dilipraj Sathyamurthy, Jayakanthan Mannu, Senthil Natesan, Bharathi Nathan, Saranya Nallusamy, M. B. Narayanan, Kavithamani Duraisamy","doi":"10.1007/s13237-023-00464-0","DOIUrl":"https://doi.org/10.1007/s13237-023-00464-0","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139860063","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2024-02-06DOI: 10.1007/s13237-023-00464-0
Dilipraj Sathyamurthy, Jayakanthan Mannu, Senthil Natesan, Bharathi Nathan, Saranya Nallusamy, M. B. Narayanan, Kavithamani Duraisamy
{"title":"Comparative chloroplast genome analysis of six millet species along with related Poaceae family members","authors":"Dilipraj Sathyamurthy, Jayakanthan Mannu, Senthil Natesan, Bharathi Nathan, Saranya Nallusamy, M. B. Narayanan, Kavithamani Duraisamy","doi":"10.1007/s13237-023-00464-0","DOIUrl":"https://doi.org/10.1007/s13237-023-00464-0","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139800044","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-12-15DOI: 10.1007/s13237-023-00457-z
Sandeep Jaiswal, Lal Bahadur Singh, Kuldeep Kumar, J. Vijayan, Nivedita Shettigar, Sudhir Kumar Jha, K. R. Soren
{"title":"Anti-CRISPR proteins: a weapon of phage-bacterial arm race for genome editing","authors":"Sandeep Jaiswal, Lal Bahadur Singh, Kuldeep Kumar, J. Vijayan, Nivedita Shettigar, Sudhir Kumar Jha, K. R. Soren","doi":"10.1007/s13237-023-00457-z","DOIUrl":"https://doi.org/10.1007/s13237-023-00457-z","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139000535","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-12-05DOI: 10.1007/s13237-023-00452-4
Sushma Devi, J. K. Raina, Pawan Kumar, Amrit Sudershan, Ravi Sharma, Rakesh K. Panjalyia, Sanjeev K. Digra, Parvinder Kumar
{"title":"Genetic association study of rs1801133 of MTHFR, rs4646903 of CYP1A1, null mutation of GSTM1&GSTT1 with leukemia in the Jammu region of north Indian population","authors":"Sushma Devi, J. K. Raina, Pawan Kumar, Amrit Sudershan, Ravi Sharma, Rakesh K. Panjalyia, Sanjeev K. Digra, Parvinder Kumar","doi":"10.1007/s13237-023-00452-4","DOIUrl":"https://doi.org/10.1007/s13237-023-00452-4","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-12-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138601155","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-12-01DOI: 10.1007/s13237-023-00454-2
Rohith Grandhi, Ingrid Berenice Sanchez Carrillo, Mariia Synytsia, Hugo Germain
{"title":"Architecture and composition of plant nucleopore complexes, comparisons with putative homologs across kingdoms","authors":"Rohith Grandhi, Ingrid Berenice Sanchez Carrillo, Mariia Synytsia, Hugo Germain","doi":"10.1007/s13237-023-00454-2","DOIUrl":"https://doi.org/10.1007/s13237-023-00454-2","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138611886","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-11-13DOI: 10.1007/s13237-023-00451-5
Douglas E. Soltis, Jennifer A. Tate, Pamela S. Soltis, V. Vaughan Symonds
{"title":"Parental genomic compatibility model: only certain diploid genotype combinations form allopolyploids","authors":"Douglas E. Soltis, Jennifer A. Tate, Pamela S. Soltis, V. Vaughan Symonds","doi":"10.1007/s13237-023-00451-5","DOIUrl":"https://doi.org/10.1007/s13237-023-00451-5","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136283591","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-11-07DOI: 10.1007/s13237-023-00449-z
Xianwen Ji, Saulo Alves Aflitos, Sander Peters, M. Eric Schranz, Jirska Philipse-Berendsen, Aat Vogelaar, Cilia Lelivelt, Hans de Jong
Abstract A common problem in the cultivation and breeding of cauliflower ( Brassica oleracea L. var. botrytis ) is the occurrence of aneuploids in offspring families. To reveal the chromosomal cause of such numerical variants, it was necessary to develop karyotype tools with which chromosomes can be easily identified. Since mitotic chromosomes in this crop are morphologically similar and lack differentiating banding patterns, we tested two Fluorescent in situ Hybridization (FISH) procedures for chromosome identification: (1) FISH painting with diagnostic repetitive DNA patterns and (2) cross-species chromosome painting. The first method consists of a five-colour FISH with 5s rDNA, 45S rDNA, and two Brassica rapa centromere-specific repeats, and a B. rapa BAC (KBrH092N02) containing a dispersed repeat of an unknown class. The second method is an advanced FISH technology based on hybridising DNA probes of a related species under adapted stringency conditions to identify their homoeologous loci. To this end, we applied four pools of BACs from Arabidopsis thaliana in a multicolour FISH for a banding pattern on the chromosomes of cauliflower ( Brassica oleracea L. var. botrytis ). Due to the genome triplication and various chromosome rearrangements of Brassica oleracea compared to Arabidopsis, we used MUMmer whole-genome alignment plot information to select Arabidopsis BAC pools with which all cauliflower chromosomes could be identified. In a sample of 21 plants with aberrant phenotypes, we demonstrated primary trisomy for chromosomes 1–6 and 8, and telo-trisomy for chromosomes 7 and 9. Finally, we discuss the advantages and drawbacks of the two painting methods and eventual alternatives for demonstrating numerical aberrations in the cauliflower populations. Graphical Abstract
摘要花椰菜(Brassica oleracea L. var. botrytis)栽培育种中常见的问题是后代家族中出现非整倍体。为了揭示这些数字变异的染色体原因，有必要开发易于鉴定染色体的核型工具。由于该作物的有丝分裂染色体在形态上相似且缺乏可区分的条带模式，因此我们测试了两种荧光原位杂交(FISH)方法用于染色体鉴定:(1)具有诊断性重复DNA模式的FISH绘画和(2)跨物种染色体绘画。第一种方法由含有5s rDNA、45S rDNA和两个rapa着丝粒特异性重复序列的五色FISH和含有未知类分散重复序列的rapa BAC (KBrH092N02)组成。第二种方法是一种先进的FISH技术，基于在适应的严格条件下杂交近缘物种的DNA探针来识别它们的同源位点。为此，我们将拟南芥的4个bac池应用于多色FISH中，用于花菜(Brassica oleracea L. var. botrytis)染色体上的条带模式。与拟南芥相比，甘蓝基因组存在三倍复制和多种染色体重排，因此我们使用MUMmer全基因组比对图信息选择拟南芥BAC池，以鉴定所有菜花染色体。在21株表型异常的植物样本中，我们发现1-6号和8号染色体为原三体，7号和9号染色体为端三体。最后，我们讨论了两种绘画方法的优点和缺点，以及在花椰菜种群中展示数值像差的最终选择。图形抽象
{"title":"FISH painting for chromosome identification of aneuploid cauliflower (Brassica oleracea L. var. botrytis)","authors":"Xianwen Ji, Saulo Alves Aflitos, Sander Peters, M. Eric Schranz, Jirska Philipse-Berendsen, Aat Vogelaar, Cilia Lelivelt, Hans de Jong","doi":"10.1007/s13237-023-00449-z","DOIUrl":"https://doi.org/10.1007/s13237-023-00449-z","url":null,"abstract":"Abstract A common problem in the cultivation and breeding of cauliflower ( Brassica oleracea L. var. botrytis ) is the occurrence of aneuploids in offspring families. To reveal the chromosomal cause of such numerical variants, it was necessary to develop karyotype tools with which chromosomes can be easily identified. Since mitotic chromosomes in this crop are morphologically similar and lack differentiating banding patterns, we tested two Fluorescent in situ Hybridization (FISH) procedures for chromosome identification: (1) FISH painting with diagnostic repetitive DNA patterns and (2) cross-species chromosome painting. The first method consists of a five-colour FISH with 5s rDNA, 45S rDNA, and two Brassica rapa centromere-specific repeats, and a B. rapa BAC (KBrH092N02) containing a dispersed repeat of an unknown class. The second method is an advanced FISH technology based on hybridising DNA probes of a related species under adapted stringency conditions to identify their homoeologous loci. To this end, we applied four pools of BACs from Arabidopsis thaliana in a multicolour FISH for a banding pattern on the chromosomes of cauliflower ( Brassica oleracea L. var. botrytis ). Due to the genome triplication and various chromosome rearrangements of Brassica oleracea compared to Arabidopsis, we used MUMmer whole-genome alignment plot information to select Arabidopsis BAC pools with which all cauliflower chromosomes could be identified. In a sample of 21 plants with aberrant phenotypes, we demonstrated primary trisomy for chromosomes 1–6 and 8, and telo-trisomy for chromosomes 7 and 9. Finally, we discuss the advantages and drawbacks of the two painting methods and eventual alternatives for demonstrating numerical aberrations in the cauliflower populations. Graphical Abstract","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135475479","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2023-11-01DOI: 10.1007/s13237-023-00445-3
Lakshminarasimhan Krishnaswamy, Changzeng Zhao, Patrice S. Albert, Zhi Gao, Ellen Mazalale, Alessandra Torno York, Louis Nastasi, Jacob A. Kelly, Hua Yang, James A. Birchler
Abstract Barbara McClintock recognized transposable elements originally by the movement of a site of chromosomal breakage, a genetic element called Dissociation ( Ds ) that was induced to break or transpose by another element she called Activator . The chromosome breaking version, when analyzed on the molecular level was one transposon inside another. It is now known that transposition involving transposon termini in non-standard orientation with reference to each other results in chromosomal breakage. Here we used engineered transposon ends together with a phenotypic marker to cause targeted chromosomal breaks. The results indicate that engineered direct orientation of the naturally inverted repeats of Dissociation can cause chromosomal breakage at the transgenic sites of insertion.
Barbara McClintock最初通过染色体断裂位点的运动发现了转座因子，这是一种被称为解离(Dissociation, Ds)的遗传因子，它被另一种被她称为激活因子(Activator)的因子诱导断裂或转座。在分子水平上分析，染色体断裂的版本是一个转座子在另一个转座子内。现在已经知道，涉及转座子末端在彼此参照的非标准方向上的转座子会导致染色体断裂。在这里，我们使用工程转座子末端与表型标记一起引起靶向染色体断裂。结果表明，对自然倒置的解离重复序列进行工程直接定向可以导致插入转基因位点的染色体断裂。
{"title":"Transgenic direct terminal repeats of Dissociation (Ds) produce chromosomal breakage in maize","authors":"Lakshminarasimhan Krishnaswamy, Changzeng Zhao, Patrice S. Albert, Zhi Gao, Ellen Mazalale, Alessandra Torno York, Louis Nastasi, Jacob A. Kelly, Hua Yang, James A. Birchler","doi":"10.1007/s13237-023-00445-3","DOIUrl":"https://doi.org/10.1007/s13237-023-00445-3","url":null,"abstract":"Abstract Barbara McClintock recognized transposable elements originally by the movement of a site of chromosomal breakage, a genetic element called Dissociation ( Ds ) that was induced to break or transpose by another element she called Activator . The chromosome breaking version, when analyzed on the molecular level was one transposon inside another. It is now known that transposition involving transposon termini in non-standard orientation with reference to each other results in chromosomal breakage. Here we used engineered transposon ends together with a phenotypic marker to cause targeted chromosomal breaks. The results indicate that engineered direct orientation of the naturally inverted repeats of Dissociation can cause chromosomal breakage at the transgenic sites of insertion.","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135320506","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Karyological diversity among six medicinally important species of Acanthaceae with three new chromosome counts","authors":"Nowshin Anjum, Chandan Kumar Dash, Syeda Sharmeen Sultana","doi":"10.1007/s13237-023-00443-5","DOIUrl":"https://doi.org/10.1007/s13237-023-00443-5","url":null,"abstract":"","PeriodicalId":31888,"journal":{"name":"The Nucleus","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2023-10-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136262177","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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