scholarly journals Replicating and cycling stores of information perpetuate life

2017 ◽  
Author(s):  
Antony M. Jose

AbstractLife is perpetuated through a single-cell bottleneck between generations in many organisms. Here, I highlight that this cell holds information in two distinct forms: in the linear DNA sequence that is replicated during cell divisions, and in the three-dimensional arrangement of molecules that can change during development but that is recreated at the start of each generation. These two interdependent stores of information – one replicating with each cell division and the other cycling with a period of one generation – coevolve while perpetuating an organism. Unlike the genome, the cycling arrangement of molecules, which could include RNAs, proteins, sugars, lipids, etc., is not well understood. Because this arrangement and the genome are together transmitted from one generation to the next, analysis of both is necessary to understand evolution, origins of inherited diseases, and consequences of genome engineering. Recent developments suggest that tools are in place to examine how all the information to build an organism is encoded within a single cell, and how this cell code is reproduced in every generation.

Micromachines ◽  
2022 ◽  
Vol 13 (1) ◽  
pp. 80
Author(s):  
Xiaohu Zhou ◽  
Han Wu ◽  
Haotian Wen ◽  
Bo Zheng

Single-cell analysis is becoming an indispensable tool in modern biological and medical research. Single-cell isolation is the key step for single-cell analysis. Single-cell printing shows several distinct advantages among the single-cell isolation techniques, such as precise deposition, high encapsulation efficiency, and easy recovery. Therefore, recent developments in single-cell printing have attracted extensive attention. We review herein the recently developed bioprinting strategies with single-cell resolution, with a special focus on inkjet-like single-cell printing. First, we discuss the common cell printing strategies and introduce several typical and advanced printing strategies. Then, we introduce several typical applications based on single-cell printing, from single-cell array screening and mass spectrometry-based single-cell analysis to three-dimensional tissue formation. In the last part, we discuss the pros and cons of the single-cell strategies and provide a brief outlook for single-cell printing.


2019 ◽  
Author(s):  
Benjamin Werner ◽  
Jack Case ◽  
Marc J. Williams ◽  
Kate Chkhaidze ◽  
Daniel Temko ◽  
...  

AbstractCancer is driven by complex evolutionary dynamics involving billions of cells. Increasing effort has been dedicated to sequence single tumour cells, but obtaining robust measurements remains challenging. Here we show that multi-region sequencing of bulk tumour samples contains quantitative information on single-cell divisions that is accessible if combined with evolutionary theory. Using high-throughput data from 16 human cancers, we measured the in vivo per-cell point mutation rate (mean: 1.69×10−8 bp per cell division) and per-cell survival rate (mean: 0.57) in individual patient tumours from colon, lung and renal cancers. Per-cell mutation rates varied 50-fold between individuals, and per-cell survival rates were between nearly-homeostatic and almost perfect cell doublings, equating to tumour ages between 1 and 19 years. Furthermore, reanalysing a recent dataset of 89 whole-genome sequenced healthy haematopoietic stem cells, we find 1.14 mutations per genome per cell division and near perfect cell doublings (per-cell survival rate: 0.96) during early haematopoietic development. Our analysis measures in vivo the most fundamental properties of human cancer and healthy somatic evolution at single-cell resolution within single individuals.


2007 ◽  
Vol 15 (6) ◽  
pp. 3-5
Author(s):  
Stephen W. Carmichael ◽  
Gary C. Schoenwolf

In the mammalian embryo, the first axis to appear is at the time of the fifth cell division when the inner cell mass (ICM) becomes visible. The localization of the ICM on one side of a cavity formed within the cluster of dividing cells marks the embryonic-abembryonic (E-Ab) axis. This name derives from the fact the most of the embryo will develop from the ICM, whereas other tissues (the placenta, etc.) will develop from the other cells. There has been a long-standing controversy as to what determines the mammalian E-Ab axis; is the information inherently in the zygote, or is it determined after several cell divisions? In an elegant series of studies whereby dividing cells were labeled using new molecular genetic tools and then carefully followed during development, Yoko Kurotaki, Kohei Hatta, Kazuki Nakao, Yo-ichi Nabeshima, and Toshihiko Fujimori have provided an answer in a mouse model.


Soft Matter ◽  
2014 ◽  
Vol 10 (24) ◽  
pp. 4332-4339 ◽  
Author(s):  
Anna Mkrtchyan ◽  
Jan Åström ◽  
Mikko Karttunen

A two-dimensional single-cell based model for cell divisions and tissue growth.


Blood ◽  
2018 ◽  
Vol 132 (Supplement 1) ◽  
pp. 751-751
Author(s):  
Hojun Li ◽  
Anirudh Natarajan ◽  
Jideofor Ezike ◽  
M Inmaculada Barrasa ◽  
Huan Yang ◽  
...  

Abstract To generate the billions of new erythrocytes required on a daily basis, erythroid progenitor cells must exponentially increase in number before undergoing terminal differentiation. A limited number of cell divisions occur during erythropoietin (EPO)-regulated erythroid terminal differentiation, but the principal regulation of erythroid transit-amplification occurs earlier in erythropoiesis between the burst forming unit-erythroid (BFU-E) and colony forming unit-erythroid (CFU-E) stages of development. The importance of this EPO-independent early erythropoietic process is highlighted in Diamond-Blackfan Anemia (DBA). DBA is characterized by pure red cell aplasia, loss of BFU-E and CFU-E progenitors in the bone marrow, and severe anemia despite high circulating EPO levels. The only known effective medical therapy for DBA also provides insight into the regulation of erythroid transit-amplification. In patients responsive to glucocorticoid treatment, there are increased numbers of BFU-E and CFU-E progenitors in the bone marrow, and ex vivo culture studies indicate that the synthetic glucocorticoid dexamethasone (Dex) predominantly increases proliferative capacity of BFU-Es, with minimal effect on proliferative capacity of CFU-Es. These findings led to a prevailing model that glucocorticoids increase BFU-E proliferative capacity by stimulating several rounds of self-renewal cell divisions. However, a limitation of this model is that there is no mechanistic explanation for how BFU-Es regulate the fate choice of undergoing a self-renewal cell division versus a differentiation cell division in the presence or absence of glucocorticoids. In this study, we address this question by examining progression of early erythroid progenitor development at single cell resolution, and subsequently elucidate the true mechanistic nature of glucocorticoid-induced erythroid progenitor proliferative capacity amplification. By performing single cell transcriptome profiling (scRNAseq) of primary-isolated mouse fetal liver BFU-Es, CFU-Es, and their developmental intermediates, we identify a continuum of transcriptomic states during erythroid transit-amplification when performing principle component analysis (PCA) on transcriptomes of individual cells. We show that ex vivo culture of primary-isolated BFU-Es in serum free media supplemented with stem cell factor, insulin-like growth factor 1, and EPO results in developmental progression along the transcriptome continuum when performing scRNAseq and PCA on cultured BFU-Es. The addition of Dex into this culture system does not result in self-renewal of BFU-Es at the transcriptome level, but rather still results in developmental progression, albeit to less of a degree per cell division than BFU-Es cultured without Dex. We additionally show that the continuum of transcriptome states in erythroid transit-amplification is reflective of a continuum of functional states, with developmental progression characterized by decreasing proliferative capacity and decreasing glucocorticoid-responsiveness. Lastly, through manual separation of daughter cells resulting from a BFU-E cell division, we demonstrate that BFU-E cell division is a symmetric process at the transcriptome level, both with and without the addition of Dex. Our results clarify the nature of how glucocorticoids amplify BFU-E proliferative capacity. As opposed to stimulating a finite number of BFU-E self-renewal cell divisions, glucocorticoids decrease the extent of progression through the erythroid transit-amplifying developmental continuum per cell division. Thus, a decreased rate of progression through the developmental continuum is associated with an increased number of transit-amplifying cell divisions prior to terminal differentiation. These findings are important not only for the rational development of glucocorticoid-alternatives for treating DBA, but also for all bone marrow failure syndromes characterized by progenitor cell hypoplasia. Disclosures No relevant conflicts of interest to declare.


2020 ◽  
Vol 203 (3) ◽  
Author(s):  
Maria L. White ◽  
Prahathees J. Eswara

ABSTRACT The division and cell wall (dcw) cluster is a highly conserved region of the bacterial genome consisting of genes that encode several cell division and cell wall synthesis factors, including the central division protein FtsZ. The region immediately downstream of ftsZ encodes the ylm genes and is conserved across diverse lineages of Gram-positive bacteria and Cyanobacteria. In some organisms, this region remains part of the dcw cluster, but in others, it appears as an independent operon. A well-studied protein coded from this region is the positive FtsZ regulator SepF (YlmF), which anchors FtsZ to the membrane. Recent developments have shed light on the importance of SepF in a range of species. Additionally, new studies are highlighting the importance of the other conserved genes in this neighborhood. In this minireview, we aim to bring together the current research linking the ylm region to cell division and highlight further questions surrounding these conserved genes.


Author(s):  
Krishan Awtar

Exposure of cells to low sublethal but mitosis-arresting doses of vinblastine sulfate (Velban) results in the initial arrest of cells in mitosis followed by their subsequent return to an “interphase“-like stage. A large number of these cells reform their nuclear membranes and form large multimicronucleated cells, some containing as many as 25 or more micronuclei (1). Formation of large multinucleate cells is also caused by cytochalasin, by causing the fusion of daughter cells at the end of an otherwise .normal cell division (2). By the repetition of this process through subsequent cell divisions, large cells with 6 or more nuclei are formed.


Author(s):  
J.L. Carrascosa ◽  
G. Abella ◽  
S. Marco ◽  
M. Muyal ◽  
J.M. Carazo

Chaperonins are a class of proteins characterized by their role as morphogenetic factors. They trantsiently interact with the structural components of certain biological aggregates (viruses, enzymes etc), promoting their correct folding, assembly and, eventually transport. The groEL factor from E. coli is a conspicuous member of the chaperonins, as it promotes the assembly and morphogenesis of bacterial oligomers and/viral structures.We have studied groEL-like factors from two different bacteria:E. coli and B.subtilis. These factors share common morphological features , showing two different views: one is 6-fold, while the other shows 7 morphological units. There is also a correlation between the presence of a dominant 6-fold view and the fact of both bacteria been grown at low temperature (32°C), while the 7-fold is the main view at higher temperatures (42°C). As the two-dimensional projections of groEL were difficult to interprete, we studied their three-dimensional reconstruction by the random conical tilt series method from negatively stained particles.


2019 ◽  
Vol 63 (5) ◽  
pp. 50401-1-50401-7 ◽  
Author(s):  
Jing Chen ◽  
Jie Liao ◽  
Huanqiang Zeng ◽  
Canhui Cai ◽  
Kai-Kuang Ma

Abstract For a robust three-dimensional video transmission through error prone channels, an efficient multiple description coding for multi-view video based on the correlation of spatial polyphase transformed subsequences (CSPT_MDC_MVC) is proposed in this article. The input multi-view video sequence is first separated into four subsequences by spatial polyphase transform and then grouped into two descriptions. With the correlation of macroblocks in corresponding subsequence positions, these subsequences should not be coded in completely the same way. In each description, one subsequence is directly coded by the Joint Multi-view Video Coding (JMVC) encoder and the other subsequence is classified into four sets. According to the classification, the indirectly coding subsequence selectively employed the prediction mode and the prediction vector of the counter directly coding subsequence, which reduces the bitrate consumption and the coding complexity of multiple description coding for multi-view video. On the decoder side, the gradient-based directional interpolation is employed to improve the side reconstructed quality. The effectiveness and robustness of the proposed algorithm is verified by experiments in the JMVC coding platform.


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