ASSET P3 Center - Arkansas Science & Technology Authority

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14 Δεκ 2012 (πριν από 4 χρόνια και 8 μήνες)

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ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012


Intro to the P3 Center concept


Management and logistics in Year 2


Strategic Goals


Highlights of Year 2
accomplishments



The Arkansas Center for


Plant
-
Powered Production

(The P3
Center)

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

What is the P3 Center?


NSF
EPSCoR
-
supported research consortium targeting
cross
-
disciplinary approaches to plant biology and plant
products


5 Universities


Arkansas State University


University of AR, Fayetteville


University of AR,
Little Rock


University
of AR, Pine
Bluff


University Central Arkansas


> 45 faculty
(plant biologists, chemists, molecular
biologists, environmental scientists, plant pathologists,
entomologists, food scientists, computer scientists,
biochemical engineers)

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

P3 Center Mission

To take
advantage of the unique biosynthetic capacity of
plants as scalable
biofactories

for proteins, chemicals,
and
biomaterials to address
global challenges in energy,
human health, climate
change,
and food security.


Our research is focused on
understanding the underlying
mechanisms that drive the
amazing biosynthetic capacity
of plants

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Some Year 2 Logistics


Management team


Comprised of campus leads, cluster leads, outreach coordinator


And our program managers, Emily Devereux and Lacy Nelson


Meet every
2
weeks by phone


Campus
visits
-

faculty and administrators


P3 Lead change at UCA






(
now Ben Cash, David
Dussourd
)


Our Technical Advisory Committee


Rotation structure established


New chair : Kent Chapman (and many thanks to Joe Chappell!)


New members: Industry
-

John Howard (Adv. Biotech. Institute, CA)
and Bioinformatics
-

Robin Buell (Michigan State University)


Gary Thompson and Celia
MacIntosh

“retired”


Many thanks!!!

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

I.
Build
instrumentation

infrastructure and capabilities

II.
Enhance
research competitiveness
of P3 focal areas

III.
Build intellectual infrastructure thru
professional and
workforce development

IV.
Build
national reputation

V.
Build
sustainability

of the program


P3 Center Strategic Plan

Some highlights……

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

I. Instrumentation


Web
database “live” by end of
year


Campuses tasked with sustainability plan for multi
-
user items


Highlight


the
Scanalyzer

-

truly
enabling technology
for high
-
thru
-
put
phenotyping

(
Argelia

Lorence
)




Collecting exceptional data!


Training session at ACMAP
mtg


Initiated collaboration with Nebraska
EPSCoR

(joint proposal to NSF
pending)

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

II. Research
Competitiveness

Research clusters

1.
Comparative metabolomics:


Steve Grace (UALR); Julie Carrier (UAF)

3. Productivity “
set
-
points”


Beth Hood (ASU)

2.
Plant interactions with other
organisms


Ken
Korth

(UAF)

4. Next
-
Gen

Seq

and bioinformatics


Xiuzhen Huang (ASU)


ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Metabolic Profiling

Expression Profiling


Presented at Phytochemical Society of North
America and P3/ACMAP


See poster by Marissa de La Paz

Student Involvement

Ryne Ramaker

Destiny Davis (INBRE)

Delice Kayeshgiue (INBRE)

Chen Chen

Marissa de La Paz

Comparative metabolomics
:


Gene
, pathway
enzyme,
discovery


Metabolite
engineering


HTP
metabolite data management

Genetic
Phenotyping

Gene Discovery

Revealed Novel
Aspects of Light
Regulation of Plant
Metabolism

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012


Presented at MCBIOS 2012 and P3/ACMAP 2012


See poster by Stephen Embry

What is it good for?


Produces rapid unbiased “barcode” of LCMS
data for statistical analysis


Class assignment, detection of outliers, etc.


Data mining for important variables,
biomarkers, etc.

What is it?


A versatile software tool designed to parse,
filter, and mine LCMS datasets

MySql Tables runs, scan_number, and
point_number

NeedleFinder
Object BucketFiller()

MySql Tables bin
and bucket_analysis

Export LCMS
data in CDF
format

MVA MetaboAnalyst

Statistica

Output files in
csv format

NeedleFinder

Object Loader()

NeedleFinder

Object
Parser()

Class Assignment

3D Barcode

NeedleFinder
:
a New Bioinformatics Tool for Mining
Metabolomic

Datasets


ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Plant interactions



plant proteins and
metabolites serve
as
signals
in host pathways, in
defense against pests, and
to promote health
and nutrition
in animals

Applying
tools of genomics, plant
culture,
and metabolomics
to fungal pathogenesis, insect
herbivory
, food science,
neurobiology, mammalian cell culture, and
immunology

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ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Biological “
set
-
points

--

addressing mechanisms
that limit protein and biomass accumulation

INPUTS


Genes


Genotypes


Nutrients


Conditions

OUTPUTS


Proteins


Phytochemicals


Biomass


Biomaterials


Nature has selected for metabolic
efficiency

Plants make what they need



but have tremendous untapped capacity


Key Activities and Accomplishments


Held campus
brainstorming meetings


Visited
NSF ‘plant genome’; USDA ‘plant biology’ (plan
collab
. grant)


Initiated interactions with
iPlant

Collaborative


Submitting BMC Plant Biology/ Biotechnology “special issue” (review and 4
research articles)

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Determined factors affecting high
-
level protein
accumulation in transgenic maize seed

P3 seed grant

Xiuzhen

Huang, Thomas Teoh, Elizabeth Hood


Moved from Microarray to Next Gen Sequencing to compare high and low
protein accumulation in embryos; First Next Gen project at ASU


One manuscript submitted, one in preparation


Network proposal submitted to NSF 2010


Set Points proposal planned for USDA 2012

Stage

Total # of genes
expressed

S15

17,107

S21

18,177

S27

16,122

Avg.

17,105

Research Highlight

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Next
-
Gen and
BioInformatics


~17 P3 projects (Just received last data sets)


Secure data storage on P3 servers (ASU)


Xiuzhen Huang’s students are performing initial alignment,
assembly, and expression counts


NSF
-
EPSCoR

BioInformatics

Conference (Huang & McClure)


iPlant Workshop


May 17
-
18 at UALR


~45 participants; > 20
P3


State Breakdown : AR:
34, MS: 7 (
EPSCoR

link),
LA: 1, KY:1

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Faculty successes and reputation building


Invited book editors


Argelia Lorence,
Recombinant Gene Expression,
Reviews and Protocols, 3
rd

Edition


Burt
Bluhm
,
Fungal Genomics: Methods and
Protocols
(co
-
ed)


Julie
Carrier,
Biorefinery

Co
-
Products:
Phytochemicals, Primary Metabolites and Value
-
Added Biomass
Processing (co
-
ed)



Increased participation on grant review
panels


DOE, NSF, USDA

III. Professional and Workforce Development

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Faculty successes and reputation building


Leadership in national organizations


e.g., Fabricio Medina
-
Bolivar, VP for ACMAP


EPSCoR

reviewer (6 P3 members on Missouri Review)


Entrepreneurship recognition


Cramer, Radin (BioStrategies
-
LC
)
win 2012
Tibbetts

Award
for
innovation from
SBA (awarded




in White House)



III. Professional and Workforce Development

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

P3 Student updates


85 UG, Grad Student, PD


Current student support


Graduate student: 10 in Yr2; 13 in Yr3


Undergrads :
16 in Yr2; 16 in
Yr3


7
successful SURF awards (1 UCA; 2 UAF; 4 ASU)


4 LSAMP students (1 UCA; 3 ASU
)


Accomplishments


John Ridenour (UAF) was awarded NSF Graduate Student
Research Fellowship


Walter Acosta (ASU) took 1
st

prize in his poster category,
National
EPSCoR

conference


ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Educational outreach & diversity

BioTech
-
iN
-
a
-
Box Program


Comprehensive teaching module ($6000 equipment)


Two
-
week loan period; Lesson
p
lans provided


50+ AR Teachers certified for use


ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Expanding Throughout AR


UAPB


Spring 2012 UG Biofuels Class:


10 UAPB UG Students trained as
“teacher mentors” for
BioTech
-
iN
-
a
-
Box: Biofuels (BTNB).


Professional Development Workshop, May 31
st
-

June 1
st



8 regional (South AR) science teachers trained/certified


Participation by UG teacher mentors

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

IV. National Reputation

P3 website is live!

www.plantpoweredproduction.org

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

P3 Annual Research Symposium


joint with ACMAP



Great science
:
250 scientists, 19 countries, 22 states


P3 Participation
: 28 Faculty;
61
Students/Postdocs;


12
Oral
Presentations;
41 Poster
Presentations
.


Awards
: Best
Oral: Debbie Vicuna; Best Graduate
Poster:
Tianhong

Yang; Best Undergraduate Poster:
Zach
Marsh



National Agricultural Biotechnology Council
(NABC) Meeting hosted in Fayetteville, May
2012; co
-
organized by Ken
Korth

2013 P3 Research Symposium will be held in
conjunction with the Southern Section


American Society of Plant Biology

Little Rock, April 6
-
9, 2013

Mariya

Khodakovskaya

(UALR), host

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

V. Sustainability


More than $3 M in new grants funded


Examples of major federal award


Qingfang

He

(UALR)
-

NSF ($451,460)
, Functional analysis of the high
-
light
-
inducible proteins (HLIP) in
Synechocystis

PCC 6803
.



Esten

Mason

(UAF)


USDA AFRI
($331,310),
Development
of
physiological
&
genetic markers for waterlogging tolerance in
wheat


Lirong

Zeng

(UALR)


USDA
-
NIFA ($149,979)
Genome
-
wide
identification & characterization of tomato E2
ubiqutin
-
conjugating
enzymes in plants



Correll
, Burt
Bluhm

(UAF), et al.


USDA
-
NIFA
-
SCRI ($827,745),
Managing Downy Mildew of spinach, a genomics
-
based approach to the
host and the pathogen


Ioannis

Tzanetakis

(UAF)


United Soybean Board ($115,000),
Epidemiology
and identification of resistance to Soybean Vein Necrosis virus


Carole
Cramer

(ASU)


NIH
-
R21 ($374,000),
RTB
-
mediated delivery:
Orchestrating antigen trafficking to enhance cell immunity

ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

Entrepreneurship and Industry Awards


Industry
Awards


Fabricio
Medina
-
Bolivar (ASU)


Infiniti Pharmaceuticals
($215,695),
Root
cultures of
Veratrum

californicum

as a sustainable
source of
cyclopamine

and related steroidal
alkaloids


SBIRs to P3
-
associated start
-
ups


Hood & Hood (ASU)
USDA SBIR
phase
II
to
Infinite Enzymes
($450,000),
Formulating new
cellulases

for diverse markets: Defining
QA parameters


Radin, Cramer (ASU), Medrano (ASU), USDA SBIR phase II
($460,000) to
BioStrategies

LC,
Plant
-
based production of
porcine IL
-
12


ARKANSAS CENTER FOR PLANT
-
POWERED PRODUCTION

EPSCoR

ASSET II Annual Meeting, 2012

P3
-

Continuing to build

Iterative strategic planning to ensure that the
more dispersed investment in a “research
network”


Builds transformational infrastructure


Empowers research in Arkansas


Brings value to its members


Thank you! Questions?