Biology subjects

Becker, N. B.

Publications and source records attributed to Becker, N. B..

5 recordsLinked to original sources

bioRxiv2025

Competitive resource allocation drives asynchronous and rapid nuclear multiplication in the malaria parasite

The unicellular malaria parasite Plasmodium falciparum proliferates within the red blood cells of its human host, where it generates approximately 20 new parasites within an infection cycle of two days. Proliferation proceeds by nuclear divisions in a shared cytoplasm, followed by cellularization. In stark contrast to the highly synchronized nuclear division cycles in many eukaryotes, Plasmodium nuclear cycles desynchronize rapidly. Here, we elucidate the mechanism of desynchronization and study its impact on parasite fitness by combining live-cell imaging of DNA replication with biophysical modeling. We find that the standard model of independent nuclear cycles with transgenerational inheritance cannot account for the experimental data, and therefore desynchronization requires nuclear coupling. Competition for a limiting pool of a replication resource explains the data, provided that the resource is allocated sequentially to individual nuclei. Sequential allocation can be achieved by stable but reversible loading of a replication component to DNA, for example proliferating cell nuclear antigen (PCNA). Remarkably, the resultant asynchronous nuclear cycles accelerate parasite proliferation by minimizing idling times of resources. Indeed, we predict theoretically that this mechanism maximizes overall proliferation rate with limited resource availability. Thus, our findings identify nuclear cycle asynchrony as a resource-efficient means to achieve rapid proliferation.

biophysics↗

bioRxiv2023

Malaria parasite proliferation implicates a resource-dependent counter mechanism

Malaria is caused by the rapid proliferation of Plasmodium parasites in patients and disease severity correlates with the number of infected red blood cells in circulation. Parasite multiplication within red blood cells is called schizogony and occurs through an atypical multinucleated cell division mode. The mechanisms regulating the number of daughter cells produced by a single progenitor are poorly understood. We investigated underlying regulatory principles by quantifying nuclear multiplication dynamics in Plasmodium falciparum and knowlesi using super-resolution time-lapse microscopy. This revealed that the number of daughter cells was statistically independent of the duration of the nuclear division phase, which confirms that a counter mechanism, rather than a timer, regulates multiplication. P. falciparum cell volume at the start of nuclear division correlated with the final number of daughter cells. As schizogony progressed, the nucleocytoplasmic volume ratio, which has been found to be constant in all eukaryotes characterized so far, increased significantly, possibly to accommodate the exponentially multiplying nuclei. Depleting nutrients by dilution of culture medium caused parasites to produce less merozoites and reduced proliferation but did not affect cell volume or total nuclear volume at the end of schizogony. Our findings suggest that the counter mechanism implicated in malaria parasite proliferation integrates extracellular resource status to modify progeny number during blood stage infection.

cell biology↗

bioRxiv2023

Trade-offs between cost and information in cellular prediction

Living cells can leverage correlations in environmental fluctuations to predict the future environment and mount a response ahead of time. To this end, cells need to encode the past signal into the output of the intracellular network from which the future input is predicted. Yet, storing information is costly while not all features of the past signal are equally informative on the future input signal. Here, we show, for two classes of input signals, that cellular networks can reach the fundamental bound on the predictive information as set by the information extracted from the past signal: pushpull networks can reach this information bound for Markovian signals, while networks that take a temporal derivative can reach the bound for predicting the future derivative of non-Markovian signals. However, the bits of past information that are most informative about the future signal are also prohibitively costly. As a result, the optimal system that maximizes the predictive information for a given resource cost is, in general, not at the information bound. Applying our theory to the chemotaxis network of Escherichia coli reveals that its adaptive kernel is optimal for predicting future concentration changes over a broad range of background concentrations, and that the system has been tailored to predicting these changes in shallow gradients.

biophysics↗

bioRxiv2020

CycleFlow quantifies cell-cycle heterogeneity in vivo

While the average cell-cycle length in a cell population can be derived from pulse-chase experiments, proliferative heterogeneity has been difficult to quantify. Here we describe CO_SCPLOWYCLEC_SCPLOWFO_SCPLOWLOWC_SCPLOW, a broadly applicable method that applies Bayesian inference to combined measurements of EdU incorporation and DNA content. CO_SCPLOWYCLEC_SCPLOWFO_SCPLOWLOWC_SCPLOW accurately quantifies the fraction of proliferating versus quiescent cells and the durations of cell-cycle phases of the proliferating cells in vitro and in vivo.

cell biology↗

bioRxiv2020

Hematopoietic lineages diverge within the stem cell compartment

Hematopoietic stem cells (HSCs) produce a highly diverse array of cell lineages. To assay hematopoietic differentiation with minimal experimental perturbation, non-invasive methods for heritable labeling1-3 or barcoding4-7 of HSCs in vivo have recently been developed and used to study lineage fate of HSCs in physiological conditions. However, the differentiation pathways leading from HSCs to mature cells remain controversial8, with suggested models ranging from gradual lineage restriction in a branching cascade of progenitors to HSCs already making ultimate lineage decisions. Here we show, by iterating HSC fate-mapping, mitotic history tracking, single-cell RNA-sequencing and computational inference, that the major differentiation routes to megakaryocytes, erythro-myeloid cells and lymphocytes split within HSCs. We identify the hitherto elusive self-renewing source of physiological hematopoiesis as an HSC subpopulation co-expressing high levels of Sca-1 and CD201. Downstream, HSCs reduce Sca-1 expression and enter into either thrombopoiesis or erythro-myelopoiesis, or retain high Sca-1 levels and the ability to generate lymphocytes. Moreover, we show that a distinct population of CD48-/lo megakaryocyte progenitors links HSCs to megakaryocytes. This direct thrombopoiesis pathway is independent of the classical pathway of megakaryocyte differentiation via multipotent progenitors and becomes the dominant platelet production line upon enhanced thrombopoietin signaling. Our results define a hierarchy of self-renewal and lineage decisions within HSCs in native hematopoiesis. Methodologically, we provide a blueprint for mapping physiological differentiation pathways of stem cells and probing their regulation.

systems biology↗