Isolated polynucleotides and polypeptides, and methods of using same for increasing plant yield and/or agricultural characteristics

Abstract

Provided are isolated polypeptides which are at least 80% homologous to SEQ ID NOs: 710-1153 and 9276-15726, isolated polynucleotides which are at least 80% identical to SEQ ID NOs: 1-709 and 1157-9275, nucleic acid constructs comprising same, transgenic cells expressing same, transgenic plants expressing same and method of using same for increasing yield, abiotic stress tolerance, growth rate, biomass, vigor, oil content, photosynthetic capacity, seed yield, fiber yield, fiber quality, fiber length, and/or nitrogen use efficiency of a plant.

What is claimed is: 
     
         1 . A method of increasing yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, nitrogen use efficiency, and/or abiotic stress tolerance, or reducing time to flowering or to inflorescence emergence of a plant, comprising over-expressing within the plant a polypeptide comprising an amino acid sequence having at least 80% amino acid sequence identity to SEQ ID NO: 885, 713-716, 718-734, 737, 739-741, 743-744, 746-765, 767-784, 786-788, 790-795, 797, 810-811, 813-876, 878-884, 886-889, 891-929, 931-947, 949-1004, 1006-1010, 1012-1021, 1029-1064, 1067-1074, 1076-1080, 1082-1088, 1091-1092, 1094-1153, 9283-9526, 9536, 9550-9772, 9825, 9832, 9843-9854, 9866-9881, 9899, 9908, 9925-9988, 9990-10284, 10290-11275, 11278-11279, 11282-11284, 11289-11295, 11297-11299, 11301, 11303-11305, 11308-11312, 11314, 11384, 11386, 11394, 11400, 11407, 11416-11417, 11421, 11425-11426, 11429, 11433, 11439-11441, 11443-11444, 11446-11447, 11449-11450, 11453-11455, 11457, 11460, 11468-11469, 11471, 11475, 11482, 11485, 11488, 11494-11496, 11500-11503, 11505-11506, 11510-11513, 11516-11525, 11530, 11551, 11555, 11559, 11561, 11570-11571, 11582, 11589, 11605, 11612, 11695, 11697, 11699-13027, 13057, 13066, 13091-13092, 13104, 13109, 13116, 13119-13180, 13188, 13192-13327, 13329-13352, 13355-13929, 13941-13942, 13946-14117, 14119-14519, 14524-14526, 14533, 14549, 14553, 14555-14556, 14558-14559, 14561-14562, 14565-14567, 14569-14706, 14738-14913, 14989-15034, 15037-15049, 15051-15072, 15074-15221, 15229-15252, 15254-15272, 15281-15409, 15425, 15428-15434, 15455-15721 or 15722 as compared to a wild type plant of the same species grown under the same growth conditions, thereby increasing the yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, nitrogen use efficiency, and/or abiotic stress tolerance, or reducing time to flowering or to inflorescence emergence, of the plant. 
     
     
         2 . The method of  claim 1 , wherein said amino acid sequence is selected from the group consisting of SEQ ID NOs: 885, 713-735, 737, 739-741, 743-765, 767-795, 797, 809-884, 886-947, 949-1004, 1006-1010, 1012-1021, 1029-1064, 1067-1080, 1082-1092, 1094-1153, 9276-9281, 9283-9532, 9534-9541, 9543-9545, 9548-9774, 9776, 9778-9785, 9788-9791, 9793-9801, 9803, 9806-9807, 9809-9820, 9822-9823, 9825-9838, 9840-9841, 9843-9854, 9866-9881, 9889-9890, 9893-9894, 9897-9899, 9901, 9904, 9906, 9908-9910, 9912-10285, 10287-11276, 11278-11319, 11321, 11323, 11328-11330, 11333-11336, 11339-11342, 11344-11355, 11357, 11359-11362, 11364-11366, 11369-13113, 13115-13944, 13946-14117, 14119-14519, 14524-14526, 14533, 14549, 14553, 14555-14556, 14558-14559, 14561-14562, 14565-14567, 14569-14706, 14738-14913, 14915, 14917-14918, 14920-14921, 14923-14924, 14927-14933, 14937, 14939-14940, 14942, 14944-14949, 14951, 14953, 14955-14958, 14960-14962, 14964-14971, 14973, 14976, 14978-14979, 14989-15221, 15225-15272, 15275-15410, 15412-15420, 15422-15423, 15425-15426, 15428-15434, 15436, 15440-15441, 15443-15444, 15446, 15448-15449, and 15451-15726. 
     
     
         3 . The method of  claim 1 , wherein said polypeptide is expressed from an exogenous polynucleotide comprising a nucleic acid sequence having at least 80% nucleic acid sequence identity to SEQ ID NO: 564, 4-7, 9-25, 28, 30-32, 34-35, 37-56, 58-75, 77-79, 81-86, 88, 101-102, 104-167, 169-180, 182-220, 222-238, 240-295, 297-301, 303-312, 320-389, 391, 395-398, 400-416, 419, 421-423, 425-426, 428-447, 449-464, 466-468, 470-475, 477, 490-491, 493-555, 557-563, 565-568, 570-605, 607-623, 625-679, 681-685, 687-696, 704-709, 1164-1439, 1453, 1468-1733, 1788, 1795, 1806-1822, 1836-1860, 1884, 1899, 1917-2324, 2331-3501, 3504-3506, 3509-3511, 3518-3526, 3528-3530, 3532, 3534-3536, 3540-3547, 3549, 3638, 3641-3643, 3652, 3661, 3663, 3668, 3671, 3683-3684, 3689, 3695-3696, 3700-3702, 3708, 3715-3718, 3720-3721, 3723-3724, 3726-3727, 3732-3733, 3735, 3737, 3740, 3750-3751, 3753, 3757, 3764-3765, 3768, 3772, 3776, 3783-3785, 3789-3792, 3794-3795, 3800-3803, 3806-3818, 3827, 3889, 3894, 3898, 3900, 3915-3916, 3936, 3943, 3964, 3971, 4099, 4101, 4103-4245, 4247-6064, 6103, 6112, 6137-6138, 6150, 6155, 6162, 6165-6237, 6245, 6249-6406, 6408-6434, 6437-7124, 7140-7141, 7145-7355, 7357-7841, 7846-7848, 7855, 7871, 7876, 7878-7879, 7881-7882, 7874-7885, 7889, 7892, 7894-8044, 8083-8305, 8387-8453, 8457-8472, 8474-8505, 8507-8683, 8691-8720, 8722-8748, 8757-8898, 8915, 8918-8927, 8948-9270 or 9271. 
     
     
         4 . The method of  claim 1 , wherein said polypeptide is expressed from an exogenous polynucleotide comprising the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 564, 4-28, 30-86, 88, 100-238, 240-295, 297-301, 303-312, 320-389, 391, 395-419, 421-475, 477, 489-563, 565-623, 625-679, 681-685, 687-696, 704-709, 1157-1822, 1836-4245, 4247-7355, 7357-7841, 7846-7848, 7855, 7871, 7876, 7878-7879, 7881-7882, 7874-7885, 7889, 7892, 7894-8044, 8083-8375, 8387-8683, and 8686-9275. 
     
     
         5 . The method of  claim 1 , further comprising growing the plant expressing said exogenous polynucleotide under nitrogen-limiting conditions. 
     
     
         6 . The method of  claim 1 , further comprising growing the plant expressing said exogenous polynucleotide under abiotic stress conditions. 
     
     
         7 . A method of producing a crop, comprising growing a crop plant transformed with an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide comprising an amino acid sequence having at least 80% amino acid sequence identity to the amino acid sequence selected from the group consisting of SEQ ID NOs: 885, 713-716, 718-734, 737, 739-741, 743-744, 746-765, 767-784, 786-788, 790-795, 797, 810-811, 813-876, 878-884, 886-889, 891-929, 931-947, 949-1004, 1006-1010, 1012-1021, 1029-1064, 1067-1074, 1076-1080, 1082-1088, 1091-1092, 1094-1153, 9283-9526, 9536, 9550-9772, 9825, 9832, 9843-9854, 9866-9881, 9899, 9908, 9925-9988, 9990-10284, 10290-11275, 11278-11279, 11282-11284, 11289-11295, 11297-11299, 11301, 11303-11305, 11308-11312, 11314, 11384, 11386, 11394, 11400, 11407, 11416-11417, 11421, 11425-11426, 11429, 11433, 11439-11441, 11443-11444, 11446-11447, 11449-11450, 11453-11455, 11457, 11460, 11468-11469, 11471, 11475, 11482, 11485, 11488, 11494-11496, 11500-11503, 11505-11506, 11510-11513, 11516-11525, 11530, 11551, 11555, 11559, 11561, 11570-11571, 11582, 11589, 11605, 11612, 11695, 11697, 11699-13027, 13057, 13066, 13091-13092, 13104, 13109, 13116, 13119-13180, 13188, 13192-13327, 13329-13352, 13355-13929, 13941-13942, 13946-14117, 14119-14519, 14524-14526, 14533, 14549, 14553, 14555-14556, 14558-14559, 14561-14562, 14565-14567, 14569-14706, 14738-14913, 14989-15034, 15037-15049, 15051-15072, 15074-15221, 15229-15252, 15254-15272, 15281-15409, 15425, 15428-15434, and 15455-15722, wherein the crop plant is obtained from plants which have been transformed with said exogenous polynucleotide and which have been selected for increased yield, increased growth rate, increased biomass, increased vigor, increased oil content, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, increased nitrogen use efficiency, increased abiotic stress tolerance, reduced time to flowering and reduced time to inflorescence emergence as compared to a wild type plant of the same species which is grown under the same growth conditions, and the crop plant has the increased yield, increased growth rate, increased biomass, increased vigor, increased oil content, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, increased nitrogen use efficiency, increased abiotic stress tolerance, reduced time to flowering and/or reduced time to inflorescence emergence, thereby producing the crop. 
     
     
         8 . The method of  claim 7 , wherein said amino acid sequence is selected from the group consisting of SEQ ID NOs: 885, 713-735, 737, 739-741, 743-765, 767-795, 797, 809-884, 886-947, 949-1004, 1006-1010, 1012-1021, 1029-1064, 1067-1080, 1082-1092, 1094-1153, 9276-9281, 9283-9532, 9534-9541, 9543-9545, 9548-9774, 9776, 9778-9785, 9788-9791, 9793-9801, 9803, 9806-9807, 9809-9820, 9822-9823, 9825-9838, 9840-9841, 9843-9854, 9866-9881, 9889-9890, 9893-9894, 9897-9899, 9901, 9904, 9906, 9908-9910, 9912-10285, 10287-11276, 11278-11319, 11321, 11323, 11328-11330, 11333-11336, 11339-11342, 11344-11355, 11357, 11359-11362, 11364-11366, 11369-13113, 13115-13944, 13946-14117, 14119-14519, 14524-14526, 14533, 14549, 14553, 14555-14556, 14558-14559, 14561-14562, 14565-14567, 14569-14706, 14738-14913, 14915, 14917-14918, 14920-14921, 14923-14924, 14927-14933, 14937, 14939-14940, 14942, 14944-14949, 14951, 14953, 14955-14958, 14960-14962, 14964-14971, 14973, 14976, 14978-14979, 14989-15221, 15225-15272, 15275-15410, 15412-15420, 15422-15423, 15425-15426, 15428-15434, 15436, 15440-15441, 15443-15444, 15446, 15448-15449, and 15451-15726. 
     
     
         9 . The method of  claim 7 , wherein said exogenous polynucleotide comprises a nucleic acid sequence having at least 80% nucleic acid sequence identity to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 564, 4-7, 9-25, 28, 30-32, 34-35, 37-56, 58-75, 77-79, 81-86, 88, 101-102, 104-167, 169-180, 182-220, 222-238, 240-295, 297-301, 303-312, 320-389, 391, 395-398, 400-416, 419, 421-423, 425-426, 428-447, 449-464, 466-468, 470-475, 477, 490-491, 493-555, 557-563, 565-568, 570-605, 607-623, 625-679, 681-685, 687-696, 704-709, 1164-1439, 1453, 1468-1733, 1788, 1795, 1806-1822, 1836-1860, 1884, 1899, 1917-2324, 2331-3501, 3504-3506, 3509-3511, 3518-3526, 3528-3530, 3532, 3534-3536, 3540-3547, 3549, 3638, 3641-3643, 3652, 3661, 3663, 3668, 3671, 3683-3684, 3689, 3695-3696, 3700-3702, 3708, 3715-3718, 3720-3721, 3723-3724, 3726-3727, 3732-3733, 3735, 3737, 3740, 3750-3751, 3753, 3757, 3764-3765, 3768, 3772, 3776, 3783-3785, 3789-3792, 3794-3795, 3800-3803, 3806-3818, 3827, 3889, 3894, 3898, 3900, 3915-3916, 3936, 3943, 3964, 3971, 4099, 4101, 4103-4245, 4247-6064, 6103, 6112, 6137-6138, 6150, 6155, 6162, 6165-6237, 6245, 6249-6406, 6408-6434, 6437-7124, 7140-7141, 7145-7355, 7357-7841, 7846-7848, 7855, 7871, 7876, 7878-7879, 7881-7882, 7874-7885, 7889, 7892, 7894-8044, 8083-8305, 8387-8453, 8457-8472, 8474-8505, 8507-8683, 8691-8720, 8722-8748, 8757-8898, 8915, 8918-8927, and 8948-9271. 
     
     
         10 . The method of  claim 7 , wherein said nucleic acid sequence is selected from the group consisting of SEQ ID NOs: 564, 4-28, 30-86, 88, 100-238, 240-295, 297-312, 320-389, 391, 395-419, 421-475, 477, 489-563, 565-623, 625-679, 681-685, 687-696, 704-709, 1157-1822, 1836-4245, 4247-7355, 7357-7841, 7846-7848, 7855, 7871, 7876, 7878-7879, 7881-7882, 7874-7885, 7889, 7892, 7894-8044, 8083-8375, 8387-8683, and 8686-9275. 
     
     
         11 . A nucleic acid construct comprising an isolated polynucleotide comprising a nucleic acid sequence encoding a polypeptide which comprises an amino acid sequence having at least 80% amino acid sequence identity to the amino acid sequence set forth in SEQ ID NO: 885, 713-716, 718-734, 737, 739-741, 743-744, 746-765, 767-784, 786-788, 790-795, 797, 810-811, 813-876, 878-884, 886-889, 891-929, 931-947, 949-1004, 1006-1010, 1012-1021, 1029-1064, 1067-1074, 1076-1080, 1082-1088, 1091-1092, 1094-1153, 9283-9526, 9536, 9550-9772, 9825, 9832, 9843-9854, 9866-9881, 9899, 9908, 9925-9988, 9990-10284, 10290-11275, 11278-11279, 11282-11284, 11289-11295, 11297-11299, 11301, 11303-11305, 11308-11312, 11314, 11384, 11386, 11394, 11400, 11407, 11416-11417, 11421, 11425-11426, 11429, 11433, 11439-11441, 11443-11444, 11446-11447, 11449-11450, 11453-11455, 11457, 11460, 11468-11469, 11471, 11475, 11482, 11485, 11488, 11494-11496, 11500-11503, 11505-11506, 11510-11513, 11516-11525, 11530, 11551, 11555, 11559, 11561, 11570-11571, 11582, 11589, 11605, 11612, 11695, 11697, 11699-13027, 13057, 13066, 13091-13092, 13104, 13109, 13116, 13119-13180, 13188, 13192-13327, 13329-13352, 13355-13929, 13941-13942, 13946-14117, 14119-14519, 14524-14526, 14533, 14549, 14553, 14555-14556, 14558-14559, 14561-14562, 14565-14567, 14569-14706, 14738-14913, 14989-15034, 15037-15049, 15051-15072, 15074-15221, 15229-15252, 15254-15272, 15281-15409, 15425, 15428-15434, 15455-15721 or 15722, and a heterologous promoter for directing transcription of said nucleic acid sequence in a host cell, wherein said amino acid sequence is capable of increasing yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, nitrogen use efficiency, and/or abiotic stress tolerance, or reducing time to flowering and/or to inflorescence emergence, of a plant. 
     
     
         12 . The nucleic acid construct of  claim 11 , wherein said amino acid sequence is selected from the group consisting of SEQ ID NOs: 885, 713-735, 737, 739-741, 743-765, 767-795, 797, 809-884, 886-947, 949-1004, 1006-1010, 1012-1021, 1029-1064, 1067-1080, 1082-1092, 1094-1153, 9276-9281, 9283-9532, 9534-9541, 9543-9545, 9548-9774, 9776, 9778-9785, 9788-9791, 9793-9801, 9803, 9806-9807, 9809-9820, 9822-9823, 9825-9838, 9840-9841, 9843-9854, 9866-9881, 9889-9890, 9893-9894, 9897-9899, 9901, 9904, 9906, 9908-9910, 9912-10285, 10287-11276, 11278-11319, 11321, 11323, 11328-11330, 11333-11336, 11339-11342, 11344-11355, 11357, 11359-11362, 11364-11366, 11369-13113, 13115-13944, 13946-14117, 14119-14519, 14524-14526, 14533, 14549, 14553, 14555-14556, 14558-14559, 14561-14562, 14565-14567, 14569-14706, 14738-14913, 14915, 14917-14918, 14920-14921, 14923-14924, 14927-14933, 14937, 14939-14940, 14942, 14944-14949, 14951, 14953, 14955-14958, 14960-14962, 14964-14971, 14973, 14976, 14978-14979, 14989-15221, 15225-15272, 15275-15410, 15412-15420, 15422-15423, 15425-15426, 15428-15434, 15436, 15440-15441, 15443-15444, 15446, 15448-15449, and 15451-15726. 
     
     
         13 . The nucleic acid construct of  claim 11 , wherein said nucleic acid sequence has at least 80% nucleic acid sequence identity to SEQ ID NO: 564, 4-7, 9-25, 28, 30-32, 34-35, 37-56, 58-75, 77-79, 81-86, 88, 101-102, 104-167, 169-180, 182-220, 222-238, 240-295, 297-301, 303-312, 320-389, 391, 395-398, 400-416, 419, 421-423, 425-426, 428-447, 449-464, 466-468, 470-475, 477, 490-491, 493-555, 557-563, 565-568, 570-605, 607-623, 625-679, 681-685, 687-696, 704-709, 1164-1439, 1453, 1468-1733, 1788, 1795, 1806-1822, 1836-1860, 1884, 1899, 1917-2324, 2331-3501, 3504-3506, 3509-3511, 3518-3526, 3528-3530, 3532, 3534-3536, 3540-3547, 3549, 3638, 3641-3643, 3652, 3661, 3663, 3668, 3671, 3683-3684, 3689, 3695-3696, 3700-3702, 3708, 3715-3718, 3720-3721, 3723-3724, 3726-3727, 3732-3733, 3735, 3737, 3740, 3750-3751, 3753, 3757, 3764-3765, 3768, 3772, 3776, 3783-3785, 3789-3792, 3794-3795, 3800-3803, 3806-3818, 3827, 3889, 3894, 3898, 3900, 3915-3916, 3936, 3943, 3964, 3971, 4099, 4101, 4103-4245, 4247-6064, 6103, 6112, 6137-6138, 6150, 6155, 6162, 6165-6237, 6245, 6249-6406, 6408-6434, 6437-7124, 7140-7141, 7145-7355, 7357-7841, 7846-7848, 7855, 7871, 7876, 7878-7879, 7881-7882, 7874-7885, 7889, 7892, 7894-8044, 8083-8305, 8387-8453, 8457-8472, 8474-8505, 8507-8683, 8691-8720, 8722-8748, 8757-8898, 8915, 8918-8927, 8948-9270 or 9271. 
     
     
         14 . The nucleic acid construct of  claim 11 , wherein said nucleic acid sequence is selected from the group consisting of SEQ ID NOs: 564, 4-28, 30-86, 88, 100-238, 240-295, 297-301, 303-312, 320-389, 391, 395-419, 421-475, 477, 489-563, 565-623, 625-679, 681-685, 687-696, 704-709, 1157-1822, 1836-4245, 4247-7355, 7357-7841, 7846-7848, 7855, 7871, 7876, 7878-7879, 7881-7882, 7874-7885, 7889, 7892, 7894-8044, 8083-8375, 8387-8683, and 8686-9275. 
     
     
         15 . A plant cell transformed with the nucleic acid construct of  claim 11 . 
     
     
         16 . The plant cell of  claim 15 , wherein said plant cell forms part of a plant. 
     
     
         17 . A plant transformed with the nucleic acid construct of  claim 11 . 
     
     
         18 . The method of  claim 1 , wherein said abiotic stress is selected from the group consisting of: salinity, drought, osmotic stress, water deprivation, flood, etiolation, low temperature, high temperature, heavy metal toxicity, anaerobiosis, nutrient deficiency, nitrogen deficiency, nutrient excess, atmospheric pollution and UV irradiation. 
     
     
         19 . A method of growing a crop, the method comprising seeding seeds and/or planting plantlets of a plant transformed with the nucleic acid construct of  claim 11 , wherein the plant is obtained from plants which have been transformed with said exogenous polynucleotide and which have been selected for at least one trait selected from the group consisting of: increased nitrogen use efficiency, increased abiotic stress tolerance, increased biomass, increased growth rate, increased vigor, increased yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, increased oil content, reduced time to flowering and reduced time to inflorescence emergence, as compared to a non-transformed plant, thereby growing the crop. 
     
     
         20 . The method of  claim 1 , further comprising selecting a plant having an increased yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, nitrogen use efficiency, and/or abiotic stress tolerance, and/or a reduced time to flowering or reduced time to inflorescence emergence, as compared to the wild type plant of the same species which is grown under the same growth conditions. 
     
     
         21 . The method of  claim 20 , wherein said selecting is performed under non-stress conditions. 
     
     
         22 . The method of  claim 20 , wherein said selecting is performed under abiotic stress conditions.