From: Curator@FRODO.MGH.HARVARD.EDU (AAtDB Data Submission Address)
Newsgroups: bionet.genome.arabidopsis
Subject: Genetic Marker Survey
Date: 10 Sep 92 06:25:48 GMT
Distribution: bionet

September 8, 1992

Dear Colleague:

    Your help is needed to update the linkage map of Arabidopsis. The
maps currently available through AAtDB (An Arabidopsis thaliana
Database established by Mike Cherry, Sam Cartinhour, and Howard
Goodman) and being developed with AIMS (Arabidopsis Information
Management System database established by Sakti Pramanik and Randy
Scholl) need additional input from the community to remain current.
The attached forms will be used to produce new lists of mapped visible
and molecular markers for use by the Arabidopsis community. Complete
recombination data will be requested later when a decision is made
concerning the optimal format for producing future genetic maps. This
initial request is simply for general linkage and mapping information.
Results will be added immediately to both AAtDB and AIMS and
distributed in tabular form through the electronic network by November
6th. We hope to have this information available for distribution at
the Plant Genome Conference (November 9-11, San Diego, CA) to
demonstrate the extent of recent advances in Arabidopsis mapping
projects and facilitate planning and coordination of future mapping
programs.

    The success of this effort will obviously depend on your
willingness to provide data. Please make an effort to respond. Even
preliminary data indicating linkage to a single marker would be useful
for this initial survey. We realize that in some cases, individuals
may be reluctant to submit detailed mapping information prior to
publication. This concern may be particularly evident when walking
efforts are in progress. It should nevertheless be possible to provide
approximate locations of mutant genes without jeopardizing research
efforts of individual laboratories. We plan to establish a system that
will allow individuals to submit mapping information and recombination
data to centralized locations for rapid dispersal to the Arabidopsis
community. Your help is needed to make this effort successful.

    We are also concerned that the same gene symbol may in some cases
be assigned to unrelated mutant genes. This will obviously lead to
confusion if the duplication is not detected before publication. We
need a continuously updated list of gene symbols that can be consulted
when you want to name a new class of mutants. We therefore hope that
you will return the form requesting information on new gene symbols
even if you do not have mapping information to contribute.

    Please respond by October 15 so the information can be compiled
and distributed without delay. This survey is being distributed in
two different ways to the Arabidopsis community: (1) through this
electronic network; and (2) by postal mail to individuals selected
from the mailing list for the Arabidopsis Biological Resource Center
at Ohio State. To respond by postal mail, completed forms should be
sent to: Arabidopsis Biological Resource Center at Ohio State; 1735
Neil Avenue; Columbus, OH 43210, USA (FAX 614-292-0603).
Alternatively, you may respond through email to the electronic version
of this survey by contacting AAtDB at: curator@frodo.mgh.harvard.edu.
This survey was prepared by David Meinke with assistance from Randy
Scholl, Maarten Koornneef, Elliot Meyerowitz, Joe Ecker, Chris
Somerville, and Mike Cherry.

Instructions for Completing Arabidopsis Mapping Survey

Please return completed forms to AAtDB through electronic mail using
the address: curator@frodo.mgh.harvard.edu. Alternatively, you can
print out this message or use the printed survey and return your
information to the ABRC postal address or FAX number given above.

Deadline for Receipt of Forms: October 15.

    Late forms will not be included in tables distributed through
electronic networks or presented at the Plant Genome Conference in San
Diego (November 9-11, 1992).

Use Form #1 to provide information on the approximate chromosomal
            locations of mutant genes mapped relative to visible or
            molecular markers. Information is requested for mutants
            not on the attached AAtDB list, and mutants on the AAtDB
            list but without mapping data.

Use Form #2 to provide information on the approximate chromosomal
            locations of cloned genes and other molecular markers.
            Information is requested for markers not on the attached
            AAtDB list, and markers on the AAtDB list but without
            mapping data.

Use Form #3 to provide information on the mutant gene symbols
            currently being employed in your laboratory. Please limit
            this list to symbols not on the enclosed AAtDB list.
            Please include only mutants that have been characterized
            in detail. We do not want to clutter this list with
            mutants that have simply been observed in passing.



Explanation of Form #1 (Mutant Genes):

Mutant Symbol: Standard 3-letter symbol and locus number where
               possible. (Example: abi3; emb28; tt5). Do not list
               alleles separately.

Full Name:     Complete descriptive name for the abbreviated mutant
               symbol. (Example: ABA insensitive; embryo defective)

Linkage Group:  Self explanatory.

Marker Tested: Most closely-linked visible or molecular marker tested.
               This marker should preferably be on the enclosed AAtDB
               list.

P ...........: Recombination % between mutant gene and most
               closely-linked marker noted in previous line.

               Note: Use (-) if you have demonstrated linkage to a
                     specific chromosome but choose not to provide
                     recombination data.

SD ..........:  Standard deviation for recombination estimate.

A/B .........: A: Locus appears to be ABOVE the tested marker on
                  linkage map.
               B: Locus appears to be BELOW the tested marker on
                  linkage map.

               Note: Use (-) if orientation of mutant gene relative to
                     tested marker has not been resolved.

Other Markers: Number of additional markers on the same chromosome for
               which you have recombination data. Use M for molecular
               markers; V for visible markers. Example: 2V indicates
               that recombination data are available for 2 other
               visible markers on the same chromosome; 4M indicates
               that recombination data are available for 4 other
               molecular markers on the same chromosome. Use ++V
               and/or ++M if the number of markers is greater than 5.



Additional Information - Form #2 (Molecular Markers).

Note: This form is not designed to collect information on YAC clones
      or contigs. The purpose is to place new markers on the genetic
      map.

Marker Symbol:  Abbreviated symbol for molecular marker.

Type of Marker: RFLP, RAPD, cDNA, cloned gene, microsatellite, or
                other.

Ecotypes:       Ecotypes used to identify molecular polymorphisms.




Examples of Proper Format

Form #1

Mutant Symbol             : emb9
Full Name of Mutant Gene  : embryo defective
Linkage Group             : 5
Marker Tested             : tt3
P                         : 1.6
S.D.                      : 0.7
A/B                       : -
Other Markers             : 2v


Form #2

Mutant Symbol             : XXXX
Type of Marker            : RFLP
Ecotypes                  : ws x ler
Linkage Group             : 5
Marker Tested             : tt3
P                         : x.x
S.D.                      : x.x
A/B                       : -
Other Markers             : 1v 2m


Form #3

New Marker Gene Symbol    : bio
Full Descriptive Name     : biotin auxotroph




Additional information for electronic survey form.

Please add your information as specified in the above examples using a
text editor or wordprocessing program. To submit information on more
than three markers, simply duplicate the appropriate region of the
form.



Form #1

Mapping Data - Mutant Genes

Contributing Laboratory   :
Department/Institution    :
Address                   :
Phone                     :
FAX                       :
email                     :

Mutant Symbol             :
Full Name of Mutant Gene  :
Linkage Group             :
Marker Tested             :
P                         :
S.D.                      :
A/B                       :
Other Markers             :

Mutant Symbol             :
Full Name of Mutant Gene  :
Linkage Group             :
Marker Tested             :
P                         :
S.D.                      :
A/B                       :
Other Markers             :

Mutant Symbol             :
Full Name of Mutant Gene  :
Linkage Group             :
Marker Tested             :
P                         :
S.D.                      :
A/B                       :
Other Markers             :



Form #2

Mapping Data - Molecular Markers

Contributing Laboratory   :
Department/Institution    :
Address                   :
Phone                     :
FAX                       :
email                     :

Mutant Symbol             :
Type of Marker            :
Ecotypes                  :
Linkage Group             :
Marker Tested             :
P                         :
S.D.                      :
A/B                       :
Other Markers             :

Mutant Symbol             :
Type of Marker            :
Ecotypes                  :
Linkage Group             :
Marker Tested             :
P                         :
S.D.                      :
A/B                       :
Other Markers             :

Mutant Symbol             :
Type of Marker            :
Ecotypes                  :
Linkage Group             :
Marker Tested             :
P                         :
S.D.                      :
A/B                       :
Other Markers             :




Form #3

New Gene Symbols

Contributing Laboratory   :
Department/Institution    :
Address                   :
Phone                     :
FAX                       :
email                     :

New Marker Gene Symbol    :
Full Descriptive Name     :

New Marker Gene Symbol    :
Full Descriptive Name     :

New Marker Gene Symbol    :
Full Descriptive Name     :



Genetic Markers of Arabidopsis thaliana - AAtDB version 1-1  Sept 1992

Information is requested for markers without map data as well as
markers not on this list.

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
1a5             IV      83.8            1a8             I       55.4
24-a            -       -               5 FALT 2        -       -
5 FALT 32       -       -               5 FALT 40/6/1   -       -
58/15           -       -               A11             -       -
a14G4           II      31.7            A9              -       -
AAc1            -       -               AB5-13          V       102.5
aba             V       103.9           abi1            IV      60.0
abi2            -       -               abi3            III     31.2
Acam3           -       -               ACP-A1          -       -
ACP-A2          -       -               act1            I       0.0
adg             -       -               ADH             -       -
ag              IV      47.5            AGL1            -       -
AGL2            -       -               AGL4            -       -
AGL5            -       -               AGL6            -       -
AHBP-1b         -       -               AHS             -       -
AKin10          -       -               alb1            I       45.5
alb2            V       21.7            alpha-TIP       -       -
an              I       34.4            ap1             I       123.3
ap2             IV      73.4            ap3             III     79.6
APG             -       -               apt             -       -
apZL            III     73.9            AR119           V       25.9
ara             -       -               ara-2           -       -
ara-3           -       -               ara-4           -       -
ara-5           -       -               ara1            IV      75.0
Ark1            -       -               as              II      73.4
ASA-1           V       14.8            ASA-2           II      65.1
at2S1           -       -               at2S2           -       -
at2S3           -       -               at2S4           -       -
AtCc-1          -       -               Athb-1          -       -
AtMT-1          -       -               ATPase          -       -
atpC1           -       -               atpC2           -       -
atpE            -       -               atpgp1          -       -
ATPK64          -       -               ats1A           -       -
ats1B           -       -               ats2B           -       -
ats3B           -       -               aux             II      74.8
Aux2-11         -       -               Aux2-27         -       -
auxinBP         IV      13.9            AVP-3           -       -
ax              -       -               axr1            I       57.5
axr2            III     31.4            B-1             -       -
B2-1            -       -               B25             -       -
B29             -       -               B73             -       -
BG1             -       -               BG2             -       -
BG3             -       -               bio1            V       85.1
bp              IV      17.7            BWS12           III     31.1
ca              -       -               cab1            -       -
CAB11           III     68.9            cab2            -       -
cab3            -       -               Cab4            -       -

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
cam1            -       -               cam2            -       -
Cat             -       -               CD05629         V       10.5
CD06119         III     4.2             CD06455         IV      56.0
CD06455f        V       43.7            cdc2            -       -
CDC2a           -       -               CDC2b           -       -
cer             -       -               cer1            I       35.0
cer10           -       -               cer11           -       -
cer12           -       -               cer13           -       -
cer14           -       -               cer16           -       -
cer17           -       -               cer18           -       -
cer19           -       -               cer2            IV      57.7
cer20           -       -               cer3            V       88.8
cer4            IV      66.4            cer5            I       103.0
cer6            I       119.6           cer7            III     89.1
cer8            II      86.8            cer9            IV      81.4
ch1             I       90.5            ch2             -       -
ch42            IV      49.2            ch5             V       49.5
ch6             III     86.0            chi             -       -
chl1            I       47.9            chl2            II      45.2
chl3            I       93.1            chl4            -       -
chm             III     29.0            chp7            V       15.0
chs             -       -               chs1            I       66.9
ci              -       -               cl              -       -
clv1            I       134.0           clv2            I       117.3
cnx             -       -               co              V       20.2
com             -       -               cop1            II      66.9
cor47           -       -               cor6.6          -       -
cp1             IV      33.7            cp2             II      45.9
cp3             IV      83.3            cpn-60          -       -
CRA1            -       -               CRB             -       -
CS116           -       -               CS119           -       -
CS156           -       -               CS2071          -       -
csr             III     72.9            csr1            -       -
D3              -       -               d501            -       -
dbp             -       -               dct             -       -
det1            -       -               dfr             -       -
DHS1            IV      88.6            DHS2            IV      92.4
dig             -       -               dis             -       -
dis1            I       52.2            dis2            I       76.9
dw              I       56.2            dw1             -       -
dwf             III     19.7            dwf1            -       -
dwf2            -       -               emb15           V       95.6
emb16           V       92.0            emb18           II      71.4
emb20           IV      59.9            emb20-1         -       -
emb20-3         -       -               emb22           I       94.3
emb24           V       8.4             emb25           I       126.8
emb28           IV      53.2            emb29           III     21.4
emb30           I       48.5            emb33           I       139.5
emb39           II      87.6            emb78           III     87.9
emb9            V       70.0            EPSP            -       -
er              II      56.5            etr             -       -
F4              -       -               F5              -       -

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
fadA            IV      74.8            fadB            III     13.3
fadC            IV      58.7            fadD            III     5.8
fas             -       -               fb              -       -
fbp             -       -               fca             IV      37.9
fd              IV      69.4            fe              I       145.6
FeSOD           -       -               fha             I       60.2
Fl-54           -       -               Fl-82           -       -
Fl-89           -       -               flo2            -       -
flo3            -       -               flo4            -       -
flo5            -       -               flo9            -       -
fpa             II      96.4            ft              I       112.8
fve             II      39.9            fwa             IV      54.5
fy              V       6.4             g10086          IV      42.2
g11447          I       112.9           g13808          II      71.6
g16066          I       137.3           g17286          I       75.9
g17287          III     34.0            g17288          II      71.0
g17336          I       116.3           g17337          V       91.3
g17340          IV      64.3            g17341          III     11.7
g17343          -       -               g17811          III     75.6
g1789           II      75.5            g19821          I       55.5
g19826          III     95.5            g19833          IV      53.2
g19834          I       79.0            g19838          IV      53.4
g19857          I       54.2            G2              -       -
g21488          V       1.4             g21491          I       31.2
g21497          I       50.2            g21502          II      67.4
g2338           -       -               g2358           I       63.7
g2368           V       93.5            g2395           I       71.0
g2440           III     37.5            g2455           V       91.4
g2486           IV      80.5            g2488-a         III     14.4
g2488-b         I       116.0           g2534           III     62.2
g2606           III     82.1            g2616           IV      15.6
g2632           V       27.4            g2778           III     86.3
G3              -       -               g3021           V       20.4
g3088           IV      70.4            g3265           IV      84.8
g3713           IV      85.4            g3715           V       8.4
g3786           I       64.5            g3791           V       88.0
g3829           I       72.5            g3837           V       14.5
g3838           III     7.2             g3843           IV      4.0
g3844           V       86.0            g3845           IV      51.0
g3878           V       87.0            g3883           IV      54.2
g4014           III     72.0            g4026           I       110.4
g4028           V       57.7            g4100           -       -
g4111           V       28.0            g4117           III     61.5
g4119           III     10.9            g4121           I       118.6
g4125           III     80.9            g4130           V       80.9
g4131           -       -               g4133           II      16.2
g4510           V       98.0            g4513           IV      64.8
g4514           II      76.4            g4523           III     11.8
g4532           II      18.5            g4539           IV      50.0
g4547           III     14.6            g4551           IV      80.3
g4552           I       119.0           g4553           II      20.4
g4554           -       -               g4556           V       30.7

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
g4560           V       27.9            g4564           -       -
g4564-a         IV      44.0            g4564-b         III     63.9
g4568           V       24.1            g4708           III     20.9
g4715           I       55.4            g4721           I       129.1
g4723           -       -               G5              -       -
g512av          I       96.6            g5957           I       55.2
g5962           V       22.5            g5966           III     99.8
g5972           I       51.7            g6191           II      71.0
g6220           III     24.7            g6825           II      71.0
g6830           V       18.2            g6836           I       116.0
g6837           IV      39.0            g6838           I       134.0
g6842           II      58.5            g6843           V       32.5
g6844           IV      0.0             g6856           V       37.4
g6859           -       -               G7              -       -
g8300           IV      63.9            ga1             IV      10.5
ga1-14          IV      7.5             ga2             I       142.0
ga3             V       39.7            ga4             I       55.5
ga5             IV      57.0            gai             I       55.9
GAP-A           III     30.9            GAP-B           I       92.5
GAP-C           III     1.0             GapA            -       -
gapB            -       -               gapC            -       -
GBF1            -       -               GBF2            -       -
GBF3            -       -               gf              -       -
gi              I       66.6            gi2             -       -
gl              -       -               gl1             III     44.5
gl2             I       140.5           gl3             V       60.5
gld             -       -               gls             -       -
Gpa1            II      56.2            GRP             -       -
GS-KB6          III     21.5            GS-L1           V       45.5
GS-R1           V       52.0            GTPbp           I       55.0
HAT22           -       -               HAT24           -       -
HAT4            -       -               HAT5            -       -
HMG1            -       -               HSP17.4         -       -
hsp17.6         -       -               hsp17.6-II      -       -
SP18.2          -       -               hsp21           -       -
hsp70-9         III     19.1            HSP81-1         -       -
hy              -       -               hy1             II      57.0
hy2             III     8.6             hy3             II      42.7
hy4             IV      15.1            hy5             V       14.7
hy6             -       -               im              IV      54.2
imr1            -       -               K-24            I       128.8
KAT1            -       -               KG-10           V       35.5
KG-17           III     18.5            KG-20           I       108.8
KG-23           III     39.7            KG-31           V       14.2
KG-32           IV      63.7            KG-8            V       74.0
kin1            -       -               ld              -       -
le              I       98.5            lfy             V       88.9
lfy1            -       -               lox8            V       101.1
lPhAra1         I       52.7            lu              V       17.6
m104            II      38.9            m105            III     24.7
m115            III     83.4            m132            I       141.6
m1511a          I       109.9           m1511b          I       109.0

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
m201            I       79.4            m217            V       10.6
m219            I       49.2            m220            II      64.5
m224            V       17.2            m225            V       65.5
m226            IV      43.7            m228            III     17.5
m233            V       81.9            m235            I       68.5
m237            I       137.8           m241            I       57.0
m243            III     10.3            m246            II      11.1
m247            V       52.5            m249            III     63.7
m251            II      47.7            m252            I       127.5
m253            I       82.5            m254            I       81.6
m255            III     28.2            m262            III     3.0
m268            V       73.9            m271            I       78.4
m272            IV      64.4            m280            I       107.0
m281a           I       97.6            m281b           III     62.2
m283            II      64.3            m291            V       34.4
m299            I       86.9            m3012           I       137.0
m302            III     1.6             m305            I       115.1
m310            I       75.5            m315            I       117.4
m317            III     17.7            m321            I       79.8
m322            I       54.2            m323            II      63.2
m326            IV      39.2            M33             -       -
m331            V       73.5            m333            I       49.5
m335            I       81.3            m336            II      81.5
m339            III     86.4            m402            I       80.9
m409            III     69.1            m421            I       116.3
m422            V       55.0            m423            V       55.0
m424            III     91.3            m429            II      69.5
m433            III     31.9            m435            V       80.1
m447            V       7.4             m448            IV      20.7
m453            I       129.1           m455            -       -
m456            IV      17.2            m457            III     71.9
m460            III     88.1            m465            II      46.0
m472            III     5.9             m488            I       51.0
m497            II      18.1            m506            IV      14.9
m518            IV      30.0            m532            I       135.3
m551            II      71.3            m555            V       100.0
m557            IV      55.2            m560            III     21.0
m562            V       5.4             m576            III     70.0
m580            IV      41.4            m583            III     7.7
m600            IV      63.5            m605            II      41.0
meri-5          -       -               min             V       96.4
ms1             V       29.7            myb             III     0.0
nad5            -       -               nad5e           -       -
NIA1            I       137.5           NIA2            -       -
P445/10         -       -               pa              -       -
pAD1.7          V       74.0            pAt3-89.1       III     54.9
At5-91.5        V       61.7            pATC4           II      74.4
pAtT12-1        I       92.9            pAtT80          V       4.0
pau1-1          I       120.5           pau10-1         I       119.6
PB3             III     66.0            PBS707          II      62.5
PBS811          V       16.4            PBS813a         V       72.5
PBS813b         V       85.0            pCIT1210        III     87.1

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
pCIT1212        IV      75.9            pCIT1240        III     21.2
pCIT1243        V       19.7            pCIT1291        II      13.6
pCIT4241        II      86.4            pCIT4242        V       89.0
pCIT718         V       24.9            pCITd100        II      34.4
pCITd104        IV      61.2            pCITd110        V       95.5
pCITd112a       II      0.0             pCITd117        I       121.3
pCITd123        V       97.0            pCITd23         IV      31.2
pCITd37         V       21.4            pCITd39         III     2.6
pCITd71         IV      44.9            pCITd76         IV      64.0
pCITd77         V       99.6            pCITd90         V       59.7
pCITd91         I       52.0            pCITd94         V       0.0
pCITd99         IV      68.0            pCITf16         V       26.9
pCITf3          IV      27.7            pCITf7P         III     16.7
pCITN7-24       I       132.3           pCITN7-26       II      99.5
CITN7-31        I       63.5            pcoA            -       -
peaf            III     9.3             PG11            IV      67.5
pGATC-11        V       27.5            pGH1            III     68.0
pgm             V       73.3            pgm1            -       -
pgmP            -       -               phyA            -       -
phyB            -       -               phyC            V       48.9
pi              V       28.4            pin             -       -
PK-20           II      39.2            PK-87           IV      23.6
PMA             -       -               posF21          -       -
PP1-At          -       -               PR-1            -       -
PRKase          -       -               proc1           -       -
prxCa           -       -               prxEa           -       -
pvv4            I       25.2            py              II      61.9
r2              -       -               rbp31           -       -
rca             -       -               re              II      71.9
rgn             I       33.4            ros2            -       -
RP07            -       -               RP14            -       -
RP18            -       -               rpHS-1          I       82.8
rpII            -       -               RpII205         -       -
rpm1            III     4.5             rps14           -       -
rps17           -       -               sam-1           -       -
sam-2           -       -               sat             -       -
sAt2105         V       62.7            se              -       -
sex1            I       46.7            sop1-1          -       -
sti             II      16.6            stm             -       -
STP1            -       -               su              V       42.0
suc             -       -               sul             II      83.0
sup             III     30.9            Syac1E3         I       129.0
Syac1G12        III     76.9            Ta1-1           -       -
tfl             V       6.4             th1             -       -
th2             V       53.4            th3             IV      39.5
TIP             I       130.1           top2            -       -
trnE            -       -               trnM            -       -
trnS            -       -               trnY-2          -       -
trp1            -       -               trpB            -       -
trx             -       -               TSB1            V       81.0
TSB2            IV      64.8            tt1             I       88.3
tt10            -       -               tt2             V       51.0

Marker Name   Chrom     cM              Marker Name   Chrom     cM
============  =====     =====           ============  =====     =====
tt3             V       61.5            tt4             V       20.1
tt5             III     82.8            tt6             III     94.6
tt7             V       13.1            tt8             -       -
ttg             V       35.5            tufA            -       -
tz              V       83.6            u2.2            -       -
U2.3snRNA       III     85.3            u2.4            -       -
U2.5snRNA       V       12.4            u2.6            -       -
u2.7            -       -               U2.9snRNA       IV      5.9
3B              -       -               U3C             -       -
U3D             -       -               U6-1            -       -
U6-2            -       -               U6-29           -       -
UBC1            -       -               UBQ1            -       -
UBQ2            -       -               UBQ4            -       -
UBQ5            -       -               UBQ6            -       -
ubq6121         V       2.3             V345            -       -
vc-2            -       -               vr-2            -       -
Wyac23H12       IV      72.3            xav             -       -
XDB-G           III     87.0            XERO            -       -
xv              -       -               y6-L31          III     27.2
yi              V       96.0






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Newsgroups: bionet.genome.arabidopsis