Genomic rearrangements and evolutionary changes in 3D chromatin topologies in the cotton tribe (Gossypieae) by Xiaochong Li, Jinbin Wang, Yanan Yu, Guo Li, Jinpeng Wang, Changping Li, Zixian Zeng, Ning Li, Zhibin Zhang, Qianli Dong, Yiyang Yu, Xiaofei Wang, Tianya Wang, Corrinne E. Grover, Bin Wang, Bao Liu, Jonathan F. Wendel, Lei Gong

“…Abstract Background Analysis of the relationship between chromosomal structural variation (synteny breaks) and 3D-chromatin architectural changes among closely related species has the potential to reveal causes and correlates between chromosomal change and chromatin remodeling. …”
Get full text

Induction of the Erythroid Differentiation of K562 Cells Is Coupled with Changes in the Inter-Chromosomal Contacts of rDNA Clusters by Nickolai A. Tchurikov, Elena S. Klushevskaya, Ildar R. Alembekov, Antonina N. Kretova, Vladimir R. Chechetkin, Galina I. Kravatskaya, Yuri V. Kravatsky

“…This suggests a possible role of these contacts in the formation of 3D chromosomal structures and the regulation of gene expression in development. …”
Get full text

Pattern recognition in the landscape of seemingly random chimeric transcripts by Aksheetha Sridhar, Ankita S. More, Amruta R. Jadhav, Komal Patil, Anuj Mavlankar, Vaishnavi M. Dixit, Sharmila A. Bapat

Get full text

Advances in the Study of Orchidinae Subtribe (Orchidaceae) Species with 40,42-Chromosomes in the Mediterranean Region by Alessio Turco, Robert Philipp Wagensommer, Pietro Medagli, Antonella Albano, Saverio D’Emerico

“…A deeper understanding of the diversity of chromosomal structures among these orchids promises to shed light on the mechanisms underlying speciation, adaptation, and the remarkable diversity characteristic of the Orchidaceae family.…”
Get full text

Development of a Set of Wheat-Rye Derivative Lines from Hexaploid Triticale with Complex Chromosomal Rearrangements to Improve Disease Resistance, Agronomic and Quality Traits of W... by Tingting Wang, Guangrong Li, Chengzhi Jiang, Yuwei Zhou, Ennian Yang, Jianbo Li, Peng Zhang, Ian Dundas, Zujun Yang

“…A total of 59 wheat-rye introgression lines including modified chromosome structural variations of wheat, and new complex recombinant chromosomes of rye were detected through ND-FISH and Oligo-FISH painting based on oligonucleotide pools derived from wheat-barley genome collinear regions. …”
Get full text

Dynamics of chromosome organization in a minimal bacterial cell by Benjamin R. Gilbert, Zane R. Thornburg, Troy A. Brier, Jan A. Stevens, Fabian Grünewald, John E. Stone, John E. Stone, Siewert J. Marrink, Zaida Luthey-Schulten, Zaida Luthey-Schulten, Zaida Luthey-Schulten

“…To achieve cell-scale chromosome structures that are realistic, we model the chromosome as a self-avoiding homopolymer with bending and torsional stiffnesses that capture the essential mechanical properties of dsDNA in Syn3A. …”
Get full text

Development and Characterization of Wheat-<i>Agropyron cristatum</i> Introgression Lines Induced by Gametocidal Genes and Wheat <i>ph1b</i> Mutant by Alejandro Copete-Parada, Carmen Palomino, Adoración Cabrera

“…The average induction frequency of chromosome structural aberrations was 10.9% using gametocidal 2C^c chromosome and 8.8% using <i>ph1b</i> mutant. …”
Get full text

Insights into the multi-chromosomal mitochondrial genome structure of the xero-halophytic plant Haloxylon Ammodendron (C.A.Mey.) Bunge ex Fenzl by Lulu Yang, Jia Liu, Wenjun Guo, Zehan Zheng, Yafei Xu, Houjun Xia, Tian Xiao

“…Conclusions H. ammodendron mtDNA showed a multi-chromosomal structure with two fully circularized molecules. …”
Get full text

Polytene chromosomes reflect functional organization of the Drosophila genome by D. S. Sidorenko, T. Yu. Zykova, V. A. Khoroshko, G. V. Pokholkova, S. A. Demakov, J. Larsson, E. S. Belyaeva, I. F. Zhimulev

“…Extremely long genes of different Drosophila chromosomes do not fit the common scheme, since they can occupy a series of alternating bands and interbands (up to nine chromosomal structures) formed by parts of these genes.…”
Get full text

Clinical significance of genetic profiling based on different anatomic sites in patients with mucosal melanoma who received or did not receive immune checkpoint inhibitors by Hai-Yun Wang, Ye Liu, Ling Deng, Kuntai Jiang, Xin-Hua Yang, Xiao-Yan Wu, Kai-Hua Guo, Fang Wang

“…A large number of chromosomal structural variants was found. The anatomic sites of esophagus and small bowel were independent risk factors for progression-free survival (PFS, hazard ratio [HR] 4.78, 95% confidence interval [CI] 2.42–9.45, P < 0.0001) and overall survival (OS, HR 5.26, 95% CI 2.51–11.03, P < 0.0001). …”
Get full text

Conjoined Genes as Common Events in Childhood Acute Lymphoblastic Leukemia by Marco Severgnini, Mariella D’Angiò, Silvia Bungaro, Giovanni Cazzaniga, Ingrid Cifola, Grazia Fazio

“…Bioinformatics analysis focused on fusion transcripts, originated from either inter- or intra-chromosomal structural rearrangements. Starting from a raw list of 9001 candidate events, by employing a custom-made bioinformatics pipeline, we obtained a short list of 245 candidate fusions. …”
Get full text

Single-gene FISH maps and major chromosomal rearrangements in Elymus sibiricus and E. nutans by Bo Liu, Jie Chen, Ying Yang, Wenjie Shen, Jialei Guo, Quanwen Dou

“…Abstract Background Chromosomal variations have been revealed in both E. sibiricus and E. nutans, but chromosomal structural variations, such as intra-genome translocations and inversions, are still not recognized due to the cytological limitations of previous studies. …”
Get full text

Combination of trio-based whole exome sequencing and optical genome mapping reveals a cryptic balanced translocation that causes unbalanced chromosomal rearrangements in a family w... by Min Xie, Jiangyang Xue, Yuxin Zhang, Ying Zhou, Qi Yu, Haibo Li, Qiong Li

“…We also provide a thorough overview of the application of optical genome mapping (OGM) to identify chromosomal structural variants (SVs).Methods: Trio-based whole exome sequencing (Trio-WES) was conducted to explore the genetic basis of the phenotype of the proband and her mother. …”
Get full text

Nanopore-based metagenomics analysis reveals microbial presence in amniotic fluid: A prospective study by Lihang Zhong, Yunjun Yan, Long Chen, Na Sun, Hongyan Li, Yuli Wang, Huijun Liu, Yifang Jia, Yurong Lu, Xuling Liu, Yu Zhang, Huimin Guo, Xietong Wang

“…The correlation between microbes and clinical parameters in AF with normal chromosomal structure revealed noteworthy findings. In particular, the third trimester exhibited richer microbial diversity. …”
Get full text

Genome-Wide Identification and Expression Analysis of WRKY Transcription Factors in <i>Akebia</i><i>trifoliata</i>: A Bioinformatics Study by Jun Zhu, Shengfu Zhong, Ju Guan, Wei Chen, Hao Yang, Huai Yang, Chen Chen, Feiquan Tan, Tianheng Ren, Zhi Li, Qing Li, Peigao Luo

“…In the present study, a total of 63 <i>WRKY</i> genes consisting of 13 class I, 41 class II, and 9 class III genes were identified from the newly published <i>A. trifoliata</i> genome, of which 62 were physically distributed on all 16 chromosomes. Structurally, two <i>AkWRKY</i> genes (<i>AkWRKY6</i> and <i>AkWRKY52</i>) contained four domains, and <i>AkWRKY17</i> lacked the typical heptapeptide structure. …”
Get full text

Analysis of Nuclear DNA Content and Karyotype of <i>Phaseolus vulgaris</i> L. by Haluk Kulaz, Solmaz Najafi, Ruveyde Tuncturk, Murat Tuncturk, Marzough Aziz Albalawi, Adel I. Alalawy, Atif Abdulwahab A. Oyouni, Abdulrahman Alasmari, Peter Poczai, R. Z. Sayyed

“…In addition, it is known that as that the cytological and chromosomal parameters change under the influence of the climatic conditions of each region, appropriate and stable cytological methods for each plant facilitate and enable the determination of the chromosomal structure and the identification of specific chromosomes in the genotypes of the relevant region. …”
Get full text

Knowledge-embedded spatio-temporal analysis for euploidy embryos identification in couples with chromosomal rearrangements by Fangying Chen, Xiang Xie, Du Cai, Pengxiang Yan, Chenhui Ding, Yangxing Wen, Yanwen Xu, Feng Gao, Canquan Zhou, Guanbin Li, Qingyun Mai, Ting Gao, Xiuyuan Hao

“…A total of 4112 embryos with complete time-lapse videos were enrolled for the blastocyst formation prediction task, and 1422 qualified blastocysts received PGT-A (n = 589) or PGT for chromosomal structural rearrangement (PGT-SR, n = 833) were enrolled for the euploidy assessment task in this study. …”
Get full text

Identification of angiogenesis-related genes in diabetic foot ulcer using machine learning algorithms by Xingkai Wang, Lei Meng, Juewei Zhang, Linxuan Zou, Zhuqiang Jia, Xin Han, Lin Zhao, Mingzhi Song, Zhen Zhang, Junwei Zong, Shouyu Wang, Ming Lu

“…Results: By merging 260 genes located in the green module and 59 differentially expressed genes (DEGs), 35 candidate genes highly associated with DFU were found for more investigation. 35 candidate genes were enriched in epidermal growth factor receptor binding, nuclear division regulation, fluid shear stress, atherosclerosis, and negative regulation of chromosomal structure for the enrichment study. Fifteen hub genes were found with the aid of the CytoHubba plug. …”
Get full text

ICSI does not improve reproductive outcomes in autologous ovarian response cycles with non-male factor subfertility by Supramaniam, PR, Granne, I, Ohuma, EO, Lim, LN, McVeigh, E, Venkatakrishnan, R, Becker, CM, Mittal, M

“…All fresh cycles with normal sperm parameters, performed after 1998 were included: frozen cycles, donor oocyte and sperm usage, intrauterine insemination cycles, preimplantation genetic testing (PGT) for aneuploidies (PGT-A), PGT for monogenic/single gene defects (PGT-M), PGT for chromosomal structural arrangements (PGT-SR) cycles, where the reason for stimulation was for storage and unstimulated cycles were excluded.…”