Tuesday, November 22, 2016

What drives the mind of a worm?

Seeking for principles of brain structure organization and its control mechanisms has been one of the central pursuits in brain science [1].  Brain is a complex system comprising of large number neurons that interact with each other giving rise to its functions. Hence, going beyond reductionist approaches, holistic study of structure and function of brain as a networked system is expected to yield insights into its architecture, evolution and control [2,3]. We argue that investigating brain as a complex network of neuronal connections provides a systems perspective of emergent properties and integrative functions such as behavior and memory.

We investigated the neuronal wiring diagram of C. elegans, the only complete connectome available till date [4,5], to study basic governing principles that drive structure and function of its neuronal architecture. This modest worm with its elementary nervous system possesses complex repertoire of functions linked to sensation, movement, conditioning and memory [6,7,8]. 

In our studies, we identified the 'driver neurons [9]' in the neuronal network of this worm with a combination of network theory and control systems analysis, and related them to feed forward neuronal motifs. We propose a 'distance constrained synaptic plasticity model' that captures control mechanisms of C. elegans brain network. Essentially, our results suggest that the extent of synaptic plasticity in this neuronal network is optimized so as to acquire key structural and dynamical network features.

With increasing availability and refinement of neuronal connectivity data from higher organisms (drosophila [10], mouse [11]), including humans [12], we hope our study could provide valuable insights into brain organization and its control.



References:
[1] E. Kandel, J. Schwartz, T. Jessel, Principles of Neural Science, 4th Edition, McGraw-Hill, 2000.

[2] O. Sporns, Networks of the Brain, MIT Press, 2011.

[3] Y.-Y. Liu, J.-J. Slotine, A.-L. Barabasi, Controllability of complex networks, Nature 473 (7346) (2011) 167–73.

[4]  J. G. White et al., The structure of the nervous system of the nematode Caenorhabditis elegans, Philosophical Transactions of the Royal Society B: Biological Sciences 314 (1165) (1986) 1–340.

[5] B. L. Chen, D. H. Hall, D. B. Chklovskii, Wiring optimization can relate neuronal structure and function, PNAS 103 (12) (2006) 4723–8.

[6] WormAtlas, Z.F. Altun, L.A. Herndon, C.A. Wolkow, C. Crocker, R. Lints, D.H. Hall, (ed.s) 2002-2016. http://www.wormatlas.org

[7] K. L. Howe et al., WormBase 2016: Expanding to enable helminth genomic research, Nucleic Acids Research 44 (D1) (2016) D774–80. 

[8] N. Chatterjee, S. Sinha, Understanding the mind of a worm: Hierarchical network structure underlying nervous system function in C. elegans, Progress in Brain Research 168 (07) (2008) 145–53. 

[9] R. Badhwar, G. Bagler, Control of neuronal network in Caenorhabditis elegans, PLoS ONE 10 (9) (2015) e0139204.

[10] A.-S. Chiang et al., Three-dimensional reconstruction of brain-wide wiring networks in Drosophila at single-cell resolution, Current Biology 21 (1) (2011) 1–11.

[11] B. Zingg et al.,  Neural networks of the mouse neocortex, Cell 156 (5) (2014) 1096–111. 

[12] O. Sporns, The human connectome: Origins and challenges, NeuroImage 80 (2013) 53–61. 

Monday, October 5, 2015

"Culinary Fingerprints" of regional cuisines of India

Blog covering our recent research: Anupam Jain, Rakhi N K, Ganesh Bagler*, "Analysis of food pairing in regional cuisines of India", PLoS ONE 10(10): e0139539. doi:10.1371/journal.pone.0139539

"Culinary Fingerprints" of regional cuisines of India

Any national cuisine is a sum total of its variety of regional cuisines, which are the cultural and historical identifiers of their respective regions. India is home to a number of regional cuisines, from diverse climates, geographies and cultures, that showcase its culinary diversity. We investigated the phenomenon of food pairing which examines compatibility of two ingredients in a recipe in terms of their shared flavor compounds. Our study highlighted "negative (contrasting) food pairing" as an invariant feature of Indian regional cuisines. Through an intensive data analytical study at the level of cuisine, recipes as well as ingredient pairs, we present unique culinary fingerprints that could be used to design algorithms for generating novel recipes and recipe recommender systems. 

Data of regional cuisines of India

We compiled a large set of recipes representing eight different regional and cultural cuisines of India: Bengali, Gujarati, Jain, Maharashtrian, Mughlai, Punjabi, Rajasthani and South Indian. The data includes a total of 2543 recipes across all the regional cuisines.


India cuisine map
(From http://www.indianfoodsco.com/Classes/map_de.gif)

Computing the food pairing

Starting with the data of ingredients in a recipe and flavor molecules responsible for olfactory and gustatory sensations, we computed the average food pairing in a recipe, and that for the whole regional cuisine.


Computation of food pairing pattern in a cuisine

Negative (contrasting) food pairing and "Culinary Fingerprints"

We find that contrary to what is reported in various national cuisines, negative (contrasting) food pairing is a quintessential feature of all the regional cuisines. Further, we propose that the pattern of contribution of individual food categories as a "culinary fingerprint" of regional cuisines. This reflects the contribution of individual food categories towards food pairing in the cuisine. While spice is the key contributor contrasting food pairing, variations across categories provides a unique culinary imprint of the cuisine at the molecular level.
The pattern of variations in contribution towards negative (contrasting) food pairing across food categories provides an unique culinary imprint of each regional cuisine at the molecular level.

Culinary Fingerprints of regional cuisines of India
Culinary Fingerprints of regional cuisines of India at the molecular level

Application of culinary fingerprints

Our study provides an opportunity to explore possible causal connection between diet and health (food as medicine) as well as prospection of therapeutic molecules from food ingredients. Given typical size of a recipe (8 ingredients) and the number of ingredients available (~200), the repertoire of possible recipes is astronomically large. Flavor pairing could thus be used as a basic principle in algorithm design for both recipe recommendation and novel recipe generation, thereby enabling computational systems to enter the creative domain of cooking and suggesting recipes. In such algorithms, candidate recipes could be generated based on existing domain knowledge and flavor pairing plays a crucial role while selecting the best among these candidates.


(By 'Symphony of Love' on Flickr, No changes made in the original image)

Ganesh Bagler