exPt 1 Core; flowering in 2005

Will Reed is interested in the fitness of the exPt1 parents of exPt2 plants. These parental plants are a subset of exPt1 plants that flowered and produced at least one head in 2005 (224 plants).

Back at the CBG lab we will focus on filling gaps in this dataset:

  • Seed Set: We plan to find existing seed set data (xRay and weighing data) and xRay achenes that have not yet been sampled. Here is a summary table of the number of heads we are looking for by experiment & year:
    newExpNm 1998 96_a 96_x 97_a 99m 99s inb1_a inb1_b SPP total
    hdCt1999 3 0 0 0 0 3
    hdCt2000 0 37 0 0 0 0 37
    hdCt2001 0 44 2 1 0 0 0 0 0 47
    hdCt2002 0 137 4 11 0 0 0 0 0 152
    hdCt2003 1 125 4 12 0 1 0 0 0 143
    hdCt2004 5 287 16 31 6 6 3 1 0 355
    hdCt2005 10 230 12 34 17 22 16 2 7 350
    hdCt2006 6 314 18 27 18 16 30 0 0 429
    hdCt2007 8 246 21 18 22 9 26 1 4 355
    hdCt2008 3 198 7 13 23 15 23 0 8 290
    hdCt2009 4 199 4 33 19 12 12 0 6 289
    hdCt2010 1 94 2 4 11 7 5 0 3 127
    hdCt2011 4 210 3 34 26 12 16 0 6 311
    hdCt2012 1 36 1 2 0 5 2 0 0 47
    hdCt2013 3 75 5 22 8 4 9 0 2 128
    hdCt2014 2 53 2 7 2 2 2 0 0 70
    hdCt2015 4 126 2 28 8 12 8 0 0 188
    hdCt2016 0 8 0 1 0 1 0 0 0 10
    hdCt2017 0 1 3 2 0 0 0 0 0 6
  • Achene Count: We hope to track down 2001 achene count data, finish counting 2015 achenes (experiments 96_a, 96_x, and 1998 are left), and possibly include 2016 & 2017 counts.

The core dataset contains annual fitness measurements for all Echinacea plants planted in our main common garden experimental plot (exPt 1), as well as identification and location information. Here is a list of fields in the dataset:

cgPlaId: common garden plant Id (numeric)
row: common garden location coordinate / easting or row coordinate in meters (numeric)
pos: common garden location coordinate / northing or position coordinate in meters (numeric)
yrPlanted: year planted (numeric)
newExpNm: experiment name (text)
We annually assess the following for each plant:
ld: living during observation year / 1 = yes, 0 = no (binary)
fl: flowering during observation year / 1 = yes, 0 = no (binary)
hdCt: head count / if flowering, count of heads per plant for observation year (numeric) *
achCt: achene count / count of achenes per plant for observation year (numeric) **

* here are the rules for what we consider a head: If a head was measured as normal, bent, tilted or indented (or combinations of those) it will be considered a countable head. (hdStatusCd 1-4,12-16) If a head was listed as dud, crisp, no florets, vertical development, no hd, whole head weird, or gone it is not counted as a head. However, head status is adjusted based on achenes counted: Heads are counted only if the achene count from that head is greater than 0. Heads with 0 achenes are not included in the head count for the plant.

** here is an explanation for negative numbers in acheneCt: We use “-9999” as code for “missing data” in the achCt field for each head. If the plant had multiple heads & a count was missing for one of the heads, -9999 was summed together with the good achene count(s). So far, we don’t have any instances where more than one head has a missing achene count per plant; but if we do, I’ll make a note of it. So if hdCt > 1 & acheneCt < 0 adding 9999 to acheneCt will give you the acheneCt for the heads that are not missing data.

Here is a link to the core dataset for plants flowering in 2005 (having hdCt2005 > “0”), saved as an ascii comma-separated-values file:

exPt1Fl2005CoreData.csv

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09:20 AM 10/12/2017 GK

This version of the exPt1 flowering in 2005 core dataset includes survival and flowering data through 2017 and achene count data through 2014.

exPt1Fl2005CoreData20171012.csv is a permanent link to this version of the dataset.