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157. Self-organization of swimmers drives long-range fluid transport in bacterial colonies

Author

Xu, Haoran, Dauparas, Justas, Das, Debasish, Lauga, Eric, and Wu, Yilin

Subjects
Physics - Biological Physics, Condensed Matter - Soft Condensed Matter, Physics - Fluid Dynamics
Abstract

Bacteria commonly live in structured communities that affect human health and influence ecological systems. Heterogeneous populations, such as motile and non-motile populations, often coexist in bacteria communities. Motile subpopulations in microbial communities are believed to be important to dispersal, quest for food, and material transport. However, except in circumstances where motile cells drive colony expansion (e.g. bacterial swarming), the physiological functions of motile subpopulations in bacterial communities are largely unclear. Here we discovered that motile cells in routinely cultured sessile colonies of peritrichously flagellated bacteria can self-organize into two adjacent, centimeter-scale motile rings surrounding the entire colony. The motile rings arise from spontaneous segregation of a homogeneous swimmer suspension that mimics a phase separation; the process is mediated by intercellular interactions and shear-induced depletion. As a result of this self-organization, cells drive fluid flows to circulate around the colony at a constant peak speed of approximately 30 microns per second, providing a stable and high-speed avenue for directed material transport at the macroscopic scale. These findings present a unique form of bacterial self-organization that influences population structure and material distribution in bacterial communities.

Published
2019
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172. A Health Status Evaluation Method for Chronic Disease Patients Based on Multivariate State Estimation Technique Using Wearable Physiological Signals: A Preliminary Study

Author

Xu, Haoran, Yang, Zhicheng, Lan, Ke, Yan, Wei, Wang, Zhao, Wang, Jiachen, Zang, Yaning, Pan, Jianli, Yan, Muyang, Zhang, Zhengbo, Akan, Ozgur, Editorial Board Member, Bellavista, Paolo, Editorial Board Member, Cao, Jiannong, Editorial Board Member, Coulson, Geoffrey, Editorial Board Member, Dressler, Falko, Editorial Board Member, Ferrari, Domenico, Editorial Board Member, Gerla, Mario, Editorial Board Member, Kobayashi, Hisashi, Editorial Board Member, Palazzo, Sergio, Editorial Board Member, Sahni, Sartaj, Editorial Board Member, Shen, Xuemin, Editorial Board Member, Stan, Mircea, Editorial Board Member, Jia, Xiaohua, Editorial Board Member, Zomaya, Albert Y., Editorial Board Member, Gao, Xinbo, editor, Jamalipour, Abbas, editor, and Guo, Lei, editor

Published
2022
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173. Multi-memory Enhanced Separation Network for Indoor Temperature Prediction

Author

Duan, Zhewen, Yi, Xiuwen, Li, Peng, Qi, Dekang, Li, Yexin, Xu, Haoran, Huang, Yanyong, Zhang, Junbo, Zheng, Yu, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Bertino, Elisa, Editorial Board Member, Gao, Wen, Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Woeginger, Gerhard, Editorial Board Member, Yung, Moti, Editorial Board Member, Bhattacharya, Arnab, editor, Lee Mong Li, Janice, editor, Agrawal, Divyakant, editor, Reddy, P. Krishna, editor, Mohania, Mukesh, editor, Mondal, Anirban, editor, Goyal, Vikram, editor, and Uday Kiran, Rage, editor

Published
2022
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183. RvD1 improves resident alveolar macrophage self-renewal via the ALX/MAPK14/S100A8/A9 pathway in acute respiratory distress syndrome

Author

Ye, Yang, Yang, Qian, Wei, Jinling, Shen, Chenxi, Wang, Haixing, Zhuang, Rong, Cao, Yuan, Ding, Yajun, Xu, Haoran, Xiang, Shuyang, Mei, Hongxia, Li, Zhongwang, Ren, Xiya, Zhang, Chen, Xiao, Ji, Zheng, Shengxing, Li, Ting, Zeng, Ruifeng, Liu, Huacheng, Lin, Han, Shang-guan, Wangning, Li, Ming, Jin, Shengwei, and Wang, Qian

Published
2023
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188. Cimple: Instruction and Memory Level Parallelism

Author

Kiriansky, Vladimir, Xu, Haoran, Rinard, Martin, and Amarasinghe, Saman

Subjects
Computer Science - Programming Languages
Abstract

Modern out-of-order processors have increased capacity to exploit instruction level parallelism (ILP) and memory level parallelism (MLP), e.g., by using wide superscalar pipelines and vector execution units, as well as deep buffers for in-flight memory requests. These resources, however, often exhibit poor utilization rates on workloads with large working sets, e.g., in-memory databases, key-value stores, and graph analytics, as compilers and hardware struggle to expose ILP and MLP from the instruction stream automatically. In this paper, we introduce the IMLP (Instruction and Memory Level Parallelism) task programming model. IMLP tasks execute as coroutines that yield execution at annotated long-latency operations, e.g., memory accesses, divisions, or unpredictable branches. IMLP tasks are interleaved on a single thread, and integrate well with thread parallelism and vectorization. Our DSL embedded in C++, Cimple, allows exploration of task scheduling and transformations, such as buffering, vectorization, pipelining, and prefetching. We demonstrate state-of-the-art performance on core algorithms used in in-memory databases that operate on arrays, hash tables, trees, and skip lists. Cimple applications reach 2.5x throughput gains over hardware multithreading on a multi-core, and 6.4x single thread speedup., Comment: To appear in PACT'18

Published
2018

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