Michael D Purugganan

Affiliations

Center for Genomics and Systems Biology, 12 Waverly Place, New York University, New York, NY 10003, USA; Center for Genomics and Systems Biology, New York University Abu Dhabi, Saadiyat Island, Abu Dhabi, United Arab Emirates. Electronic address: mp132@nyu.edu.

Publications (31)

Copy Number Variation in Domestication.

Trends in plant science

The chloroplast genome of the pincushion cactus

Mitochondrial DNA. Part B, Resources

Avec: Silvia Hinojosa-Alvarez , Salvador Arias , Sylvie Ferrand , Michael D Purugganan , Julio Rozas , Ulises Rosas , Ana Wegier

Domestication and the evolution of crops: variable syndromes, complex genetic architectures, and ecological entanglements.

The Plant cell

Avec: Ornob Alam , Michael D Purugganan

Deleterious Mutations and the Rare Allele Burden on Rice Gene Expression.

Molecular biology and evolution

Avec: Zoe Lye , Jae Young Choi , Michael D Purugganan

Exploring Genetic Diversity within aus Rice Germplasm: Insights into the Variations in Agro-morphological Traits.

Rice (New York, N.Y.)

Avec: Puranjoy Sar , Sonal Gupta , Motilal Behera , Koushik Chakraborty , Umakanta Ngangkham , Bibhash Chandra Verma , Amrita Banerjee , Prashantkumar S Hanjagi , Debarati Bhaduri , Sandip Shil , Jitendra Kumar , Nimai Prasad Mandal , Paresh Chandra Kole , Michael D Purugganan , Somnath Roy

Nanopore sequencing-based genome assembly and evolutionary genomics of circum-basmati rice.

Genome biology

Avec: Jae Young Choi , Zoe N Lye , Simon C Groen , Xiaoguang Dai , Priyesh Rughani , Sophie Zaaijer , Eoghan D Harrington , Sissel Juul , Michael D Purugganan

Advancing crop genomics from lab to field.

Nature genetics

Avec: Michael D Purugganan , Scott A Jackson

Patterns of Volatile Diversity Yield Insights Into the Genetics and Biochemistry of the Date Palm Fruit Volatilome.

Frontiers in plant science

Avec: Jonathan M Flowers , Khaled M Hazzouri , Alain Lemansour , Tiago Capote , Muriel Gros-Balthazard , Sylvie Ferrand , Marc Lebrun , Khaled M A Amiri , Michael D Purugganan

Genome-wide association mapping of date palm fruit traits.

Nature communications

Avec: Khaled M Hazzouri , Muriel Gros-Balthazard , Jonathan M Flowers , Dario Copetti , Alain Lemansour , Marc Lebrun , Khaled Masmoudi , Sylvie Ferrand , Michael I Dhar , Zoë A Fresquez , Ulises Rosas , Jianwei Zhang , Jayson Talag , Seunghee Lee , David Kudrna , Robyn F Powell , Ilia J Leitch , Robert R Krueger , Rod A Wing , Khaled M A Amiri , Michael D Purugganan

Evolutionary and ecological functional genomics, from lab to the wild.

The Plant journal : for cell and molecular biology

Avec: Maricris L Zaidem , Simon C Groen , Michael D Purugganan

The bracteatus pineapple genome and domestication of clonally propagated crops.

Nature genetics

Avec: Li-Yu Chen , Robert VanBuren , Margot Paris , Hongye Zhou , Xingtan Zhang , Ching Man Wai , Hansong Yan , Shuai Chen , Michael Alonge , Srividya Ramakrishnan , Zhenyang Liao , Juan Liu , Jishan Lin , Jingjing Yue , Mahpara Fatima , Zhicong Lin , Jisen Zhang , Lixian Huang , Hao Wang , Teh-Yang Hwa , Shu-Min Kao , Jae Young Choi , Anupma Sharma , Jian Song , Lulu Wang , Won C Yim , John C Cushman , Robert E Paull , Tracie Matsumoto , Yuan Qin , Qingsong Wu , Jianping Wang , Qingyi Yu , Jun Wu , Shaoling Zhang , Peter Boches , Chih-Wei Tung , Ming-Li Wang , Geo Coppens d'Eeckenbrugge , Garth M Sanewski , Michael D Purugganan , Michael C Schatz , Jeffrey L Bennetzen , Christian Lexer , Ray Ming

The complex geography of domestication of the African rice Oryza glaberrima.

PLoS genetics

Avec: Jae Young Choi , Maricris Zaidem , Rafal Gutaker , Katherine Dorph , Rakesh Kumar Singh , Michael D Purugganan

Natural variations at the Stay-Green gene promoter control lifespan and yield in rice cultivars.

Nature communications

Avec: Dongjin Shin , Sichul Lee , Tae-Heon Kim , Jong-Hee Lee , Joonheum Park , Jinwon Lee , Ji Yoon Lee , Lae-Hyeon Cho , Jae Young Choi , Wonhee Lee , Ji-Hwan Park , Dae-Woo Lee , Hisashi Ito , Dae Heon Kim , Ayumi Tanaka , Jun-Hyeon Cho , You-Chun Song , Daehee Hwang , Michael D Purugganan , Jong-Seong Jeon , Gynheung An , Hong Gil Nam

Ancestral polymorphisms shape the adaptive radiation of

Proceedings of the National Academy of Sciences of the United States of America

Avec: Jae Young Choi , Xiaoguang Dai , Ornob Alam , Julie Z Peng , Priyesh Rughani , Scott Hickey , Eoghan Harrington , Sissel Juul , Julien F Ayroles , Michael D Purugganan , Elizabeth A Stacy

What is domestication?

Trends in ecology & evolution

Avec: Michael D Purugganan

The Genome of the Mimosoid Legume

International journal of molecular sciences

Avec: Naganeeswaran Sudalaimuthuasari , Rashid Ali , Martin Kottackal , Mohammed Rafi , Mariam Al Nuaimi , Biduth Kundu , Raja Saeed Al-Maskari , Xuewen Wang , Ajay Kumar Mishra , Jithin Balan , Srinivasa R Chaluvadi , Fatima Al Ansari , Jeffrey L Bennetzen , Michael D Purugganan , Khaled M Hazzouri , Khaled M A Amiri

Selection on genome-wide gene expression plasticity of rice in wet and dry field environments.

Molecular ecology

Avec: Elena Hamann , Simon C Groen , Taryn S Dunivant , Irina Ćalić , Colleen Cochran , Rachel Konshok , Michael D Purugganan , Steven J Franks

The strength and pattern of natural selection on gene expression in rice.

Nature

Avec: Simon C Groen , Irina Ćalić , Zoé Joly-Lopez , Adrian E Platts , Jae Young Choi , Mignon Natividad , Katherine Dorph , William M Mauck , Bernadette Bracken , Carlo Leo U Cabral , Arvind Kumar , Rolando O Torres , Rahul Satija , Georgina Vergara , Amelia Henry , Steven J Franks , Michael D Purugganan

The genomes of ancient date palms germinated from 2,000 y old seeds.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Muriel Gros-Balthazard , Jonathan M Flowers , Khaled M Hazzouri , Sylvie Ferrand , Frédérique Aberlenc , Sarah Sallon , Michael D Purugganan

Natural variation in plant telomere length is associated with flowering time.

The Plant cell

Avec: Jae Young Choi , Liliia R Abdulkina , Jun Yin , Inna B Chastukhina , John T Lovell , Inna A Agabekian , Pierce G Young , Samsad Razzaque , Dorothy E Shippen , Thomas E Juenger , Eugene V Shakirov , Michael D Purugganan

Evolutionary systems biology reveals patterns of rice adaptation to drought-prone agro-ecosystems.

The Plant cell

Avec: Simon C Groen , Zoé Joly-Lopez , Adrian E Platts , Mignon Natividad , Zoë Fresquez , William M Mauck , Marinell R Quintana , Carlo Leo U Cabral , Rolando O Torres , Rahul Satija , Michael D Purugganan , Amelia Henry

The influence of genetic architecture on responses to selection under drought in rice.

Evolutionary applications

Avec: Irina Ćalić , Simon C Groen , Jae Young Choi , Zoé Joly-Lopez , Elena Hamann , Mignon A Natividad , Katherine Dorph , Carlo Leo U Cabral , Rolando O Torres , Georgina V Vergara , Amelia Henry , Michael D Purugganan , Steven J Franks

Adaptation and the Geographic Spread of Crop Species.

Annual review of plant biology

Avec: Rafal M Gutaker , Michael D Purugganan

Evolutionary Insights into the Nature of Plant Domestication.

Current biology : CB

Avec: Michael D Purugganan

Cross-species hybridization and the origin of North African date palms.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Jonathan M Flowers , Khaled M Hazzouri , Muriel Gros-Balthazard , Ziyi Mo , Konstantina Koutroumpa , Andreas Perrakis , Sylvie Ferrand , Hussam S M Khierallah , Dorian Q Fuller , Frederique Aberlenc , Christini Fournaraki , Michael D Purugganan

Rapid evolutionary changes in gene expression in response to climate fluctuations.

Molecular ecology

Avec: Elena Hamann , Christopher S Pauli , Zoé Joly-Lopez , Simon C Groen , Joshua S Rest , Nolan C Kane , Michael D Purugganan , Steven J Franks

Genomic history and ecology of the geographic spread of rice.

Nature plants

Avec: Rafal M Gutaker , Simon C Groen , Emily S Bellis , Jae Y Choi , Inês S Pires , R Kyle Bocinsky , Emma R Slayton , Olivia Wilkins , Cristina C Castillo , Sónia Negrão , M Margarida Oliveira , Dorian Q Fuller , Jade A d'Alpoim Guedes , Jesse R Lasky , Michael D Purugganan

An inferred fitness consequence map of the rice genome.

Nature plants

Avec: Zoé Joly-Lopez , Adrian E Platts , Brad Gulko , Jae Young Choi , Simon C Groen , Xuehua Zhong , Adam Siepel , Michael D Purugganan

Genome assembly and characterization of a complex zfBED-NLR gene-containing disease resistance locus in Carolina Gold Select rice with Nanopore sequencing.

PLoS genetics

Avec: Andrew C Read , Matthew J Moscou , Aleksey V Zimin , Geo Pertea , Rachel S Meyer , Michael D Purugganan , Jan E Leach , Lindsay R Triplett , Steven L Salzberg , Adam J Bogdanove

Genome Analysis Traces Regional Dispersal of Rice in Taiwan and Southeast Asia.

Molecular biology and evolution

Avec: Ornob Alam , Rafal M Gutaker , Cheng-Chieh Wu , Karen A Hicks , Kyle Bocinsky , Cristina Cobo Castillo , Stephen Acabado , Dorian Fuller , Jade A d'Alpoim Guedes , Yue-Ie Hsing , Michael D Purugganan

Systems genomics of salinity stress response in rice.

bioRxiv : the preprint server for biology

Avec: Sonal Gupta , Simon C Groen , Maricris L Zaidem , Andres Godwin C Sajise , Irina Calic , Mignon A Natividad , Kenneth L McNally , Georgina V Vergara , Rahul Satija , Steven J Franks , Rakesh K Singh , Zoé Joly-Lopez , Michael D Purugganan

Réseau de co-auteurs

Jae Young Choi 10 collaborations

Simon C Groen 10 collaborations

Zoé Joly-Lopez 6 collaborations

Sylvie Ferrand 5 collaborations

Khaled M Hazzouri 5 collaborations

Steven J Franks 5 collaborations

Jonathan M Flowers 4 collaborations

Muriel Gros-Balthazard 4 collaborations

Ornob Alam 3 collaborations

Khaled M A Amiri 3 collaborations

Katherine Dorph 3 collaborations

Elena Hamann 3 collaborations

Irina Ćalić 3 collaborations

Adrian E Platts 3 collaborations

Carlo Leo U Cabral 3 collaborations

Rolando O Torres 3 collaborations

Rahul Satija 3 collaborations

Amelia Henry 3 collaborations

Rafal M Gutaker 3 collaborations

Zoe N Lye 2 collaborations

Ulises Rosas 2 collaborations

Sonal Gupta 2 collaborations

Xiaoguang Dai 2 collaborations

Priyesh Rughani 2 collaborations

Sissel Juul 2 collaborations

Alain Lemansour 2 collaborations

Marc Lebrun 2 collaborations

Maricris L Zaidem 2 collaborations

Jeffrey L Bennetzen 2 collaborations

Mignon Natividad 2 collaborations

William M Mauck 2 collaborations

Mignon A Natividad 2 collaborations

Georgina V Vergara 2 collaborations

Dorian Q Fuller 2 collaborations

Jade A d'Alpoim Guedes 2 collaborations

Silvia Hinojosa-Alvarez 1 collaboration

Salvador Arias 1 collaboration

Julio Rozas 1 collaboration

Ana Wegier 1 collaboration

Zoe Lye 1 collaboration

Puranjoy Sar 1 collaboration

Motilal Behera 1 collaboration

Koushik Chakraborty 1 collaboration

Umakanta Ngangkham 1 collaboration

Bibhash Chandra Verma 1 collaboration

Amrita Banerjee 1 collaboration

Prashantkumar S Hanjagi 1 collaboration

Debarati Bhaduri 1 collaboration

Sandip Shil 1 collaboration

Jitendra Kumar 1 collaboration

Nimai Prasad Mandal 1 collaboration

Paresh Chandra Kole 1 collaboration

Somnath Roy 1 collaboration

Sophie Zaaijer 1 collaboration

Eoghan D Harrington 1 collaboration

Scott A Jackson 1 collaboration

Tiago Capote 1 collaboration

Dario Copetti 1 collaboration

Khaled Masmoudi 1 collaboration

Michael I Dhar 1 collaboration

Zoë A Fresquez 1 collaboration

Jianwei Zhang 1 collaboration

Jayson Talag 1 collaboration

Seunghee Lee 1 collaboration

David Kudrna 1 collaboration

Robyn F Powell 1 collaboration

Ilia J Leitch 1 collaboration

Robert R Krueger 1 collaboration

Rod A Wing 1 collaboration

Li-Yu Chen 1 collaboration

Robert VanBuren 1 collaboration

Margot Paris 1 collaboration

Hongye Zhou 1 collaboration

Xingtan Zhang 1 collaboration

Ching Man Wai 1 collaboration

Hansong Yan 1 collaboration

Shuai Chen 1 collaboration

Michael Alonge 1 collaboration

Srividya Ramakrishnan 1 collaboration

Zhenyang Liao 1 collaboration

Juan Liu 1 collaboration

Jishan Lin 1 collaboration

Jingjing Yue 1 collaboration

Mahpara Fatima 1 collaboration

Zhicong Lin 1 collaboration

Jisen Zhang 1 collaboration

Lixian Huang 1 collaboration

Hao Wang 1 collaboration

Teh-Yang Hwa 1 collaboration

Shu-Min Kao 1 collaboration

Anupma Sharma 1 collaboration

Jian Song 1 collaboration

Lulu Wang 1 collaboration

Won C Yim 1 collaboration

John C Cushman 1 collaboration

Robert E Paull 1 collaboration

Tracie Matsumoto 1 collaboration

Yuan Qin 1 collaboration

Qingsong Wu 1 collaboration

Jianping Wang 1 collaboration

Qingyi Yu 1 collaboration

Jun Wu 1 collaboration

Shaoling Zhang 1 collaboration

Peter Boches 1 collaboration

Chih-Wei Tung 1 collaboration

Ming-Li Wang 1 collaboration

Geo Coppens d'Eeckenbrugge 1 collaboration

Garth M Sanewski 1 collaboration

Michael C Schatz 1 collaboration

Christian Lexer 1 collaboration

Ray Ming 1 collaboration

Maricris Zaidem 1 collaboration

Rafal Gutaker 1 collaboration

Rakesh Kumar Singh 1 collaboration

Dongjin Shin 1 collaboration

Sichul Lee 1 collaboration

Tae-Heon Kim 1 collaboration

Jong-Hee Lee 1 collaboration

Joonheum Park 1 collaboration

Jinwon Lee 1 collaboration

Ji Yoon Lee 1 collaboration

Lae-Hyeon Cho 1 collaboration

Wonhee Lee 1 collaboration

Ji-Hwan Park 1 collaboration

Dae-Woo Lee 1 collaboration

Hisashi Ito 1 collaboration

Dae Heon Kim 1 collaboration

Ayumi Tanaka 1 collaboration

Jun-Hyeon Cho 1 collaboration

You-Chun Song 1 collaboration

Daehee Hwang 1 collaboration

Jong-Seong Jeon 1 collaboration

Gynheung An 1 collaboration

Hong Gil Nam 1 collaboration

Julie Z Peng 1 collaboration

Scott Hickey 1 collaboration

Eoghan Harrington 1 collaboration

Julien F Ayroles 1 collaboration

Elizabeth A Stacy 1 collaboration

Naganeeswaran Sudalaimuthuasari 1 collaboration

Rashid Ali 1 collaboration

Martin Kottackal 1 collaboration

Mohammed Rafi 1 collaboration

Mariam Al Nuaimi 1 collaboration

Biduth Kundu 1 collaboration

Raja Saeed Al-Maskari 1 collaboration

Xuewen Wang 1 collaboration

Ajay Kumar Mishra 1 collaboration

Jithin Balan 1 collaboration

Srinivasa R Chaluvadi 1 collaboration

Fatima Al Ansari 1 collaboration

Taryn S Dunivant 1 collaboration

Colleen Cochran 1 collaboration

Rachel Konshok 1 collaboration

Bernadette Bracken 1 collaboration

Arvind Kumar 1 collaboration

Georgina Vergara 1 collaboration

Frédérique Aberlenc 1 collaboration

Sarah Sallon 1 collaboration

Liliia R Abdulkina 1 collaboration

Jun Yin 1 collaboration

Inna B Chastukhina 1 collaboration

John T Lovell 1 collaboration

Inna A Agabekian 1 collaboration

Pierce G Young 1 collaboration

Samsad Razzaque 1 collaboration

Dorothy E Shippen 1 collaboration

Thomas E Juenger 1 collaboration

Eugene V Shakirov 1 collaboration

Zoë Fresquez 1 collaboration

Marinell R Quintana 1 collaboration

Ziyi Mo 1 collaboration

Konstantina Koutroumpa 1 collaboration

Andreas Perrakis 1 collaboration

Hussam S M Khierallah 1 collaboration

Frederique Aberlenc 1 collaboration

Christini Fournaraki 1 collaboration

Christopher S Pauli 1 collaboration

Joshua S Rest 1 collaboration

Nolan C Kane 1 collaboration

Emily S Bellis 1 collaboration

Jae Y Choi 1 collaboration

Inês S Pires 1 collaboration

R Kyle Bocinsky 1 collaboration

Emma R Slayton 1 collaboration

Olivia Wilkins 1 collaboration

Cristina C Castillo 1 collaboration

Sónia Negrão 1 collaboration

M Margarida Oliveira 1 collaboration

Jesse R Lasky 1 collaboration

Brad Gulko 1 collaboration

Xuehua Zhong 1 collaboration

Adam Siepel 1 collaboration

Andrew C Read 1 collaboration

Matthew J Moscou 1 collaboration

Aleksey V Zimin 1 collaboration

Geo Pertea 1 collaboration

Rachel S Meyer 1 collaboration

Jan E Leach 1 collaboration

Lindsay R Triplett 1 collaboration

Steven L Salzberg 1 collaboration

Adam J Bogdanove 1 collaboration

Cheng-Chieh Wu 1 collaboration

Karen A Hicks 1 collaboration

Kyle Bocinsky 1 collaboration

Cristina Cobo Castillo 1 collaboration

Stephen Acabado 1 collaboration

Dorian Fuller 1 collaboration

Yue-Ie Hsing 1 collaboration

Andres Godwin C Sajise 1 collaboration

Irina Calic 1 collaboration

Kenneth L McNally 1 collaboration

Rakesh K Singh 1 collaboration